Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr1
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 35726063
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 1821929 characters in sequence are not A, C, G, or T
File 25 of 109
Found at i:8480878 original size:23 final size:24
Alignment explanation
Indices: 8480830--8480881 Score: 72
Period size: 23 Copynumber: 2.2 Consensus size: 24
8480820 TTCTCTCATT
*
8480830 TTTGATTTTATTTTTTATTTTTAA
1 TTTGATTTTATTTTTTATTTTGAA
8480854 TTTGATTTT-TTTATTT-TTTTGAA
1 TTTGATTTTATTT-TTTATTTTGAA
8480877 TTTGA
1 TTTGA
8480882 ACTCAGAGGA
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
23 14 0.54
24 12 0.46
ACGTcount: A:0.19, C:0.00, G:0.08, T:0.73
Consensus pattern (24 bp):
TTTGATTTTATTTTTTATTTTGAA
Found at i:8489287 original size:27 final size:27
Alignment explanation
Indices: 8489245--8489299 Score: 92
Period size: 27 Copynumber: 2.0 Consensus size: 27
8489235 ATATATGCAA
**
8489245 ATCTCACACTTGGTATTTAACCAATGT
1 ATCTCACACTAAGTATTTAACCAATGT
8489272 ATCTCACACTAAGTATTTAACCAATGT
1 ATCTCACACTAAGTATTTAACCAATGT
8489299 A
1 A
8489300 AAATCTAAGT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
27 26 1.00
ACGTcount: A:0.35, C:0.22, G:0.09, T:0.35
Consensus pattern (27 bp):
ATCTCACACTAAGTATTTAACCAATGT
Found at i:8498131 original size:41 final size:43
Alignment explanation
Indices: 8498052--8498159 Score: 141
Period size: 41 Copynumber: 2.6 Consensus size: 43
8498042 TCCCATACCT
* *
8498052 GGTCTTACATGTAATCACATATCGATGCCATTGTCCCAGACAG
1 GGTCTTACACGTAATCAAATATCGATGCCATTGTCCCAGACAG
*
8498095 GGTCTTACACG-AATCAAATA-CGATGCCGA-TGTCCCAGACAT
1 GGTCTTACACGTAATCAAATATCGATGCC-ATTGTCCCAGACAG
* *
8498136 GGTCTTACACGTAAACACATATCG
1 GGTCTTACACGTAATCAAATATCG
8498160 GAGATCCTAT
Statistics
Matches: 57, Mismatches: 5, Indels: 6
0.84 0.07 0.09
Matches are distributed among these distances:
41 29 0.51
42 16 0.28
43 12 0.21
ACGTcount: A:0.31, C:0.26, G:0.19, T:0.25
Consensus pattern (43 bp):
GGTCTTACACGTAATCAAATATCGATGCCATTGTCCCAGACAG
Found at i:8508888 original size:3 final size:3
Alignment explanation
Indices: 8508880--8508930 Score: 95
Period size: 3 Copynumber: 17.3 Consensus size: 3
8508870 TACGACTCTT
8508880 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT- TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
8508927 TTA T
1 TTA T
8508931 AGCAACCATG
Statistics
Matches: 47, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
2 2 0.04
3 45 0.96
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (3 bp):
TTA
Found at i:8509487 original size:22 final size:22
Alignment explanation
Indices: 8509462--8509541 Score: 61
Period size: 22 Copynumber: 3.3 Consensus size: 22
8509452 AATTTAAAAT
8509462 TTAAAATATTTTTATTTTAATA
1 TTAAAATATTTTTATTTTAATA
* * * *
8509484 TTAAAATCAATGCAAATTAAATTTAAAA
1 TTAAAAT--AT----TTTTATTTTAATA
8509512 TTTAAAATATTTTTATTTTAATA
1 -TTAAAATATTTTTATTTTAATA
8509535 TTAAAAT
1 TTAAAAT
8509542 CAAAGGTAAA
Statistics
Matches: 43, Mismatches: 8, Indels: 14
0.66 0.12 0.22
Matches are distributed among these distances:
22 14 0.33
23 9 0.21
24 2 0.05
27 2 0.05
28 9 0.21
29 7 0.16
ACGTcount: A:0.47, C:0.03, G:0.01, T:0.49
Consensus pattern (22 bp):
TTAAAATATTTTTATTTTAATA
Found at i:8519760 original size:23 final size:22
Alignment explanation
Indices: 8519714--8519764 Score: 66
Period size: 22 Copynumber: 2.3 Consensus size: 22
8519704 TAAGTAACTC
8519714 AATTACCTATAAAAACTCAAGT
1 AATTACCTATAAAAACTCAAGT
* * *
8519736 AATTCCCTATAAAAATCTTAGGT
1 AATTACCTATAAAAA-CTCAAGT
8519759 AATTAC
1 AATTAC
8519765 AGTAAAAACC
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
22 14 0.58
23 10 0.42
ACGTcount: A:0.45, C:0.18, G:0.06, T:0.31
Consensus pattern (22 bp):
AATTACCTATAAAAACTCAAGT
Found at i:8527088 original size:13 final size:13
Alignment explanation
Indices: 8527070--8527094 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
8527060 ACAGCCAAGA
8527070 AAAATAGAGGAAG
1 AAAATAGAGGAAG
8527083 AAAATAGAGGAA
1 AAAATAGAGGAA
8527095 AAGAGAATGC
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.64, C:0.00, G:0.28, T:0.08
Consensus pattern (13 bp):
AAAATAGAGGAAG
Found at i:8531996 original size:3 final size:3
Alignment explanation
Indices: 8531990--8532025 Score: 72
Period size: 3 Copynumber: 12.0 Consensus size: 3
8531980 TTCCACTTTA
8531990 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
8532026 TTAAGTTAAA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 33 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
ATT
Found at i:8532409 original size:31 final size:31
Alignment explanation
Indices: 8532350--8532410 Score: 77
Period size: 31 Copynumber: 2.0 Consensus size: 31
8532340 AATCAATTCA
* * *
8532350 ATTCTTTTTAAAAGATTAATGATTAAATTTG
1 ATTCTTTTTAAAAAATTAAGGATCAAATTTG
* *
8532381 ATTCTTTTTAAAAAATTGAGGGTCAAATTT
1 ATTCTTTTTAAAAAATTAAGGATCAAATTT
8532411 AATTAAAAAA
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
31 25 1.00
ACGTcount: A:0.38, C:0.05, G:0.11, T:0.46
Consensus pattern (31 bp):
ATTCTTTTTAAAAAATTAAGGATCAAATTTG
Found at i:8536531 original size:539 final size:539
Alignment explanation
Indices: 8535491--8536556 Score: 1650
Period size: 539 Copynumber: 2.0 Consensus size: 539
8535481 GGGCACACAA
* * * *
8535491 AAGGTGCTTACCAAGTGAGAAACAAGGAAACTCTATGCTTTTCAAGCAACAAAGGCAAGAAGAAA
1 AAGGTGCTTACCAAGCGAGAAACAAGGAAACTCCATGCTCTTCAAGAAACAAAGGCAAGAAGAAA
* * * * * *
8535556 TGGCATCAAGCAAGAGAAAGGCTAAAAAGAGATGGTGAAAAGAAAAAGTATCCACCATGCTTGGA
66 AGGAATCAAGCAAGAGAAAGGCAAAAAAGAGATGGTGAAAAGAAAAAGTATCCACCATGATCGAA
* * * *** *
8535621 TTGCAAAAAGATGGGTCATTTAGAAAAGTTTTGCTGGACAAGACCTGGTGTGTAGCGTAAAAATT
131 TTGCAAAAAGATGGGTCATTCAGAAAAGTTTTGCTGGACAAAAACTGGTGCACAGCGTAAAAACT
* * *
8535686 GTAAGCAATTTGGCCACAATTTTAGAATTTGTAAAAACAAAGTGCAGCAGCAACAATAGCAGTCT
196 GTAAGCAATTTGGCCACAATTTTAGAATTTATAAAAACAAAGTACAGCAACAACAATAGCAGTCT
*
8535751 AATCAGGCTCAAGTGCTGAAGAAAATCAATCTCAGGAGGAGCTCGAATTCACTACTTCATGCTTC
261 AATCAGGCTCAAGTGCTGAAGAAAATCAAGCTCAGGAGGAGCTCGAATTCACTACTTCATGCTTC
* *
8535816 AAAATCAACAACCAAGATAAGAAAAAATGGTTGATTGACAGAGGTTGTACAAACCATATGGTTTC
326 AAAATCAACAACCAAGACAAGAAAAAATAGTTGATTGACAGAGGTTGTACAAACCATATGGTTTC
* * *
8535881 AGATGAAAGCATGTTCAAGGAGATTGACATATCCTTCAGTTTGAGAATCAGACTTGGAAATGGCC
391 AGATGAAAGCATGTTCAAGGAGATTGACAGATCATTCAGTTCGAGAATCAGACTTGGAAATGGCC
* *
8535946 AGATCATTGAAGCCAAGGGAAATGGGGACGTTTAGGTTAGCACTTCTATAGGTACAAAAGTTATT
456 AGATCATTGAAGCCAAGGGAAATGGGGACGTTCAGGTTAACACTTCTATAGGTACAAAAGTTATT
8536011 ACTGATGTCTTTCACGTAG
521 ACTGATGTCTTTCACGTAG
8536030 AAGGTGCTTACCAAGCGAGAAACAAGGAAACTCCATGCTCTTCAAGAAACAAAGGCAAGAAGAAA
1 AAGGTGCTTACCAAGCGAGAAACAAGGAAACTCCATGCTCTTCAAGAAACAAAGGCAAGAAGAAA
*
8536095 AGGAATCAAGCAAGAGAAAGGCAAAAAAGAGATGGTGGAAAGAAAAAGTATCCACCATGATCGAA
66 AGGAATCAAGCAAGAGAAAGGCAAAAAAGAGATGGTGAAAAGAAAAAGTATCCACCATGATCGAA
* * * * *
8536160 TTGCAAAAAGATGGGTCATTCATAAAAGTTTTGTTGGATAAAAATTGGTGCACAGTGTAAAAACT
131 TTGCAAAAAGATGGGTCATTCAGAAAAGTTTTGCTGGACAAAAACTGGTGCACAGCGTAAAAACT
* * *
8536225 GTAAGCAATTTGGCCACGATTTTAGAATTTATAAAAACAAAGTACAGTAACAACAATAGTAGTCT
196 GTAAGCAATTTGGCCACAATTTTAGAATTTATAAAAACAAAGTACAGCAACAACAATAGCAGTCT
* *
8536290 AATCAGGCTCAAGTGCTGAAGAAAATCAAGCTTAGGAGGAGCTC-ACATTCACTGCTTCATGCTT
261 AATCAGGCTCAAGTGCTGAAGAAAATCAAGCTCAGGAGGAGCTCGA-ATTCACTACTTCATGCTT
* * * * *
8536354 CACAGTCAACAACCAAGACAAGAAAAACTAGTTGATTGATAGTGGTTGTACAAACCATATGGTTT
325 CAAAATCAACAACCAAGACAAGAAAAAATAGTTGATTGACAGAGGTTGTACAAACCATATGGTTT
* * * *
8536419 CAGATGAAAGCATGTTCAAGGAGATTGATAGATTATTCAGTTCGAGAATCAGAGTTTGAAATGGC
390 CAGATGAAAGCATGTTCAAGGAGATTGACAGATCATTCAGTTCGAGAATCAGACTTGGAAATGGC
* *
8536484 CAGATCATTGAAGCCAAGGG-AATGGGAGATGTTCAGGTTAACACTTCTGTAGGTACAAAAGTTA
455 CAGATCATTGAAGCCAAGGGAAATGGG-GACGTTCAGGTTAACACTTCTATAGGTACAAAAGTTA
8536548 TTACTGATG
519 TTACTGATG
8536557 ATTAGGTCAA
Statistics
Matches: 475, Mismatches: 50, Indels: 4
0.90 0.09 0.01
Matches are distributed among these distances:
538 7 0.01
539 468 0.99
ACGTcount: A:0.39, C:0.15, G:0.22, T:0.24
Consensus pattern (539 bp):
AAGGTGCTTACCAAGCGAGAAACAAGGAAACTCCATGCTCTTCAAGAAACAAAGGCAAGAAGAAA
AGGAATCAAGCAAGAGAAAGGCAAAAAAGAGATGGTGAAAAGAAAAAGTATCCACCATGATCGAA
TTGCAAAAAGATGGGTCATTCAGAAAAGTTTTGCTGGACAAAAACTGGTGCACAGCGTAAAAACT
GTAAGCAATTTGGCCACAATTTTAGAATTTATAAAAACAAAGTACAGCAACAACAATAGCAGTCT
AATCAGGCTCAAGTGCTGAAGAAAATCAAGCTCAGGAGGAGCTCGAATTCACTACTTCATGCTTC
AAAATCAACAACCAAGACAAGAAAAAATAGTTGATTGACAGAGGTTGTACAAACCATATGGTTTC
AGATGAAAGCATGTTCAAGGAGATTGACAGATCATTCAGTTCGAGAATCAGACTTGGAAATGGCC
AGATCATTGAAGCCAAGGGAAATGGGGACGTTCAGGTTAACACTTCTATAGGTACAAAAGTTATT
ACTGATGTCTTTCACGTAG
Found at i:8539233 original size:128 final size:129
Alignment explanation
Indices: 8538986--8539242 Score: 426
Period size: 128 Copynumber: 2.0 Consensus size: 129
8538976 ACTGGTTGTT
*
8538986 CTATAAAGACTGATGTTGGATATACCACAATCTATGTAGAGGGATATGGTTGGTCGATATAGGAT
1 CTATAAAGACTGATGTTGGATATACCACAATCTATGTAGAGGGATATGGCTGGTCGATATAGGAT
*
8539051 AAGCCCCTCCTACATAATGGGAGTAATATCTTAGGCCACTTGATTAAGTAAGACTAGAAATGCA
66 AAGCCCCTCCTACATAATGGGAGTAATATCTTAGGCAACTTGATTAAGTAAGACTAGAAATGCA
* * *
8539115 CTATAAAG-GTGATGTTGGATATAGCACAATCTATGTAGAGGGATATGGCTGGTCGATTTAGGAT
1 CTATAAAGACTGATGTTGGATATACCACAATCTATGTAGAGGGATATGGCTGGTCGATATAGGAT
* * * *
8539179 AAGTCCCTCCTATATAATGGGAGTAATATCTTAGGCAACTTGATTGAGTGAGACTAGAAATGCA
66 AAGCCCCTCCTACATAATGGGAGTAATATCTTAGGCAACTTGATTAAGTAAGACTAGAAATGCA
8539243 TGGTCATGCT
Statistics
Matches: 119, Mismatches: 9, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
128 111 0.93
129 8 0.07
ACGTcount: A:0.33, C:0.14, G:0.24, T:0.29
Consensus pattern (129 bp):
CTATAAAGACTGATGTTGGATATACCACAATCTATGTAGAGGGATATGGCTGGTCGATATAGGAT
AAGCCCCTCCTACATAATGGGAGTAATATCTTAGGCAACTTGATTAAGTAAGACTAGAAATGCA
Found at i:8544622 original size:42 final size:42
Alignment explanation
Indices: 8544441--8544629 Score: 192
Period size: 41 Copynumber: 4.5 Consensus size: 42
8544431 TTTAAATAGA
* * *
8544441 TTCACCGGCACTT-AGCCTGCTAGACTTAAAGCCTG-ATTTAG-
1 TTCACCGGCA-TTAAGCCTGCTAGACGTAAAGTCTGAAATT-GT
* * * *
8544482 TACACCGGCACTT-ATCCTGCTAGACATATAGTCTGAAA-TGT
1 TTCACCGGCA-TTAAGCCTGCTAGACGTAAAGTCTGAAATTGT
*
8544523 TTCACCGGCATTAAGCCTGCTAGACGTAAAGTCTGATATTGT
1 TTCACCGGCATTAAGCCTGCTAGACGTAAAGTCTGAAATTGT
* *
8544565 TTTACCGGCATTAAGCCTGCTAGACGTAAAGTCTGAAATTAT
1 TTCACCGGCATTAAGCCTGCTAGACGTAAAGTCTGAAATTGT
* *
8544607 TTCACTGGCGA-TAAGCCTACTAG
1 TTCACCGGC-ATTAAGCCTGCTAG
8544630 GCGCTAAGCC
Statistics
Matches: 126, Mismatches: 17, Indels: 9
0.83 0.11 0.06
Matches are distributed among these distances:
40 3 0.02
41 61 0.48
42 61 0.48
43 1 0.01
ACGTcount: A:0.28, C:0.23, G:0.20, T:0.30
Consensus pattern (42 bp):
TTCACCGGCATTAAGCCTGCTAGACGTAAAGTCTGAAATTGT
Found at i:8551701 original size:42 final size:42
Alignment explanation
Indices: 8551625--8551803 Score: 200
Period size: 42 Copynumber: 4.3 Consensus size: 42
8551615 ACACTTAGCT
* * * * *
8551625 TGCTAGACATATAGTCTGA-AATGTTTCACCGGCATTAAGCC
1 TGCTAGACGTAAAGTCTGATATTATTTCACTGGCATTAAGCC
* * *
8551666 TGCTAGACGTAAAGTTTGATATTCTTTCACTGGCATTAAGCT
1 TGCTAGACGTAAAGTCTGATATTATTTCACTGGCATTAAGCC
* * * *
8551708 TGCTAGACTTAAAGTCTAAAATTATTTCACTGGCATTAGGCC
1 TGCTAGACGTAAAGTCTGATATTATTTCACTGGCATTAAGCC
* *
8551750 TGCTGGACGTAAAGTCTGATATTGTTTCACTGGCGA-TAAGCC
1 TGCTAGACGTAAAGTCTGATATTATTTCACTGGC-ATTAAGCC
*
8551792 TGCTAGGCGTAA
1 TGCTAGACGTAA
8551804 GCCTAAAATC
Statistics
Matches: 114, Mismatches: 22, Indels: 3
0.82 0.16 0.02
Matches are distributed among these distances:
41 16 0.14
42 97 0.85
43 1 0.01
ACGTcount: A:0.27, C:0.19, G:0.21, T:0.32
Consensus pattern (42 bp):
TGCTAGACGTAAAGTCTGATATTATTTCACTGGCATTAAGCC
Found at i:8551751 original size:84 final size:83
Alignment explanation
Indices: 8551621--8551797 Score: 239
Period size: 84 Copynumber: 2.1 Consensus size: 83
8551611 ATCGACACTT
* * * *
8551621 AGCTTGCTAGACATATAGTCTGAAATGTTTCACCGGCATTAAGCCTGCTAGACGTAAAGTTTGAT
1 AGCTTGCTAGACATAAAGTCTAAAATATTTCACCGGCATTAAGCCTGCTAGACGTAAAGTCTGAT
8551686 ATTCTTTCACTGGC-ATTA
66 ATTCTTTCACTGGCGA-TA
* * * *
8551704 AGCTTGCTAGACTTAAAGTCTAAAATTATTTCACTGGCATTAGGCCTGCTGGACGTAAAGTCTGA
1 AGCTTGCTAGACATAAAGTCTAAAA-TATTTCACCGGCATTAAGCCTGCTAGACGTAAAGTCTGA
*
8551769 TATTGTTTCACTGGCGATA
65 TATTCTTTCACTGGCGATA
*
8551788 AGCCTGCTAG
1 AGCTTGCTAG
8551798 GCGTAAGCCT
Statistics
Matches: 82, Mismatches: 10, Indels: 3
0.86 0.11 0.03
Matches are distributed among these distances:
83 22 0.27
84 59 0.72
85 1 0.01
ACGTcount: A:0.27, C:0.19, G:0.21, T:0.33
Consensus pattern (83 bp):
AGCTTGCTAGACATAAAGTCTAAAATATTTCACCGGCATTAAGCCTGCTAGACGTAAAGTCTGAT
ATTCTTTCACTGGCGATA
Found at i:8555249 original size:29 final size:29
Alignment explanation
Indices: 8555215--8555281 Score: 80
Period size: 29 Copynumber: 2.3 Consensus size: 29
8555205 CCTTCCCTAG
* * *
8555215 CCAATGTTGCAACCTTGGGCATTTTGATC
1 CCAATGTTGCAACATTGAGCATTCTGATC
* **
8555244 TCAATGTTGCGGCATTGAGCATTCTGATC
1 CCAATGTTGCAACATTGAGCATTCTGATC
8555273 CCAATGTTG
1 CCAATGTTG
8555282 AGACATTCAC
Statistics
Matches: 31, Mismatches: 7, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
29 31 1.00
ACGTcount: A:0.21, C:0.22, G:0.22, T:0.34
Consensus pattern (29 bp):
CCAATGTTGCAACATTGAGCATTCTGATC
Found at i:8558158 original size:2 final size:2
Alignment explanation
Indices: 8558151--8558183 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
8558141 ATATTGCTAT
8558151 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
8558184 GTATGTTTGA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:8565356 original size:33 final size:33
Alignment explanation
Indices: 8565319--8565464 Score: 107
Period size: 33 Copynumber: 4.4 Consensus size: 33
8565309 AGATTTGTAG
* *
8565319 TGCCATAACCCAATTATGGTCTTATCATTAGAA-
1 TGCCATAACCCAACTATGGTCTTA-CATTAAAAC
* *
8565352 TGCCATAGCCCAACTATGGTCTTACTTATAAATAC
1 TGCCATAACCCAACTATGGTCTTACAT-TAAA-AC
* ** * * * *
8565387 TACCATAGTCCAACCATGGTCTTACGTTCAAAG
1 TGCCATAACCCAACTATGGTCTTACATTAAAAC
** *
8565420 TGCCATAACCCAGTTATGGTCTTTTCATTAAAA-
1 TGCCATAACCCAACTATGGTC-TTACATTAAAAC
*
8565453 TGCCATATCCCA
1 TGCCATAACCCA
8565465 GTTAGGATCT
Statistics
Matches: 89, Mismatches: 20, Indels: 8
0.76 0.17 0.07
Matches are distributed among these distances:
32 2 0.02
33 52 0.58
34 12 0.13
35 23 0.26
ACGTcount: A:0.31, C:0.25, G:0.12, T:0.32
Consensus pattern (33 bp):
TGCCATAACCCAACTATGGTCTTACATTAAAAC
Found at i:8565437 original size:101 final size:101
Alignment explanation
Indices: 8565317--8565511 Score: 275
Period size: 101 Copynumber: 1.9 Consensus size: 101
8565307 TTAGATTTGT
* *
8565317 AGTGCCATAACCCAATTATGGTCTTATCATTAGAATGCCATAGCCCAACTATGG-TCTTACTTAT
1 AGTGCCATAACCCAATTATGGTCTTATCATTAAAATGCCATAGCCCAACTA-GGATCTTACATAT
*
8565381 AAATACTACCATAGTCCAACCATGGTCTTACGTTCAA
65 AAACACTACCATAGTCCAACCATGGTCTTACGTTCAA
* * * **
8565418 AGTGCCATAACCCAGTTATGGTCTTTTCATTAAAATGCCATATCCCAGTTAGGATCTTACATATA
1 AGTGCCATAACCCAATTATGGTCTTATCATTAAAATGCCATAGCCCAACTAGGATCTTACATATA
* * *
8565483 AACATTGCCATGGTCCAACCATGGTCTTA
66 AACACTACCATAGTCCAACCATGGTCTTA
8565512 TTCGTCAATT
Statistics
Matches: 82, Mismatches: 11, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
100 2 0.02
101 80 0.98
ACGTcount: A:0.31, C:0.24, G:0.14, T:0.31
Consensus pattern (101 bp):
AGTGCCATAACCCAATTATGGTCTTATCATTAAAATGCCATAGCCCAACTAGGATCTTACATATA
AACACTACCATAGTCCAACCATGGTCTTACGTTCAA
Found at i:8574646 original size:21 final size:21
Alignment explanation
Indices: 8574617--8574676 Score: 93
Period size: 21 Copynumber: 2.9 Consensus size: 21
8574607 CGAACACGCC
*
8574617 AACAAAAGCTCATAAGAGCTG
1 AACAGAAGCTCATAAGAGCTG
8574638 AACAGAAGCTCATAAGAGCTG
1 AACAGAAGCTCATAAGAGCTG
* *
8574659 AAAAGAAGCTCAAAAGAG
1 AACAGAAGCTCATAAGAG
8574677 TTGATCCACA
Statistics
Matches: 36, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
21 36 1.00
ACGTcount: A:0.50, C:0.17, G:0.22, T:0.12
Consensus pattern (21 bp):
AACAGAAGCTCATAAGAGCTG
Found at i:8578498 original size:15 final size:15
Alignment explanation
Indices: 8578480--8578514 Score: 61
Period size: 15 Copynumber: 2.3 Consensus size: 15
8578470 TATAAATGTC
8578480 ACAATAACAAATACA
1 ACAATAACAAATACA
*
8578495 ACAATAATAAATACA
1 ACAATAACAAATACA
8578510 ACAAT
1 ACAAT
8578515 GGCATAGAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
15 19 1.00
ACGTcount: A:0.66, C:0.17, G:0.00, T:0.17
Consensus pattern (15 bp):
ACAATAACAAATACA
Found at i:8578540 original size:13 final size:14
Alignment explanation
Indices: 8578521--8578557 Score: 51
Period size: 13 Copynumber: 2.7 Consensus size: 14
8578511 CAATGGCATA
8578521 GAAATAATATAAAC
1 GAAATAATATAAAC
8578535 -AAATAA-ATAAAC
1 GAAATAATATAAAC
8578547 GAAACTAATAT
1 GAAA-TAATAT
8578558 TCATAAGAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 5
0.80 0.00 0.20
Matches are distributed among these distances:
12 6 0.30
13 9 0.45
14 3 0.15
15 2 0.10
ACGTcount: A:0.65, C:0.08, G:0.05, T:0.22
Consensus pattern (14 bp):
GAAATAATATAAAC
Found at i:8578787 original size:21 final size:21
Alignment explanation
Indices: 8578763--8578806 Score: 52
Period size: 21 Copynumber: 2.1 Consensus size: 21
8578753 AATCTAGAAT
*
8578763 TATAAAATTTATATATCAAAA
1 TATAAAATGTATATATCAAAA
* * *
8578784 TATATAATGTATTTATGAAAA
1 TATAAAATGTATATATCAAAA
8578805 TA
1 TA
8578807 AAGGAAAATA
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.52, C:0.02, G:0.05, T:0.41
Consensus pattern (21 bp):
TATAAAATGTATATATCAAAA
Found at i:8579881 original size:22 final size:22
Alignment explanation
Indices: 8579840--8579881 Score: 59
Period size: 22 Copynumber: 1.9 Consensus size: 22
8579830 TTATTTTAAT
*
8579840 AAATAAATAAATAAACATATAA
1 AAATAAATAAATAAAAATATAA
8579862 AAATGAAATAAA-AAAAATAT
1 AAAT-AAATAAATAAAAATAT
8579882 CAACCTTTGT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
22 11 0.61
23 7 0.39
ACGTcount: A:0.74, C:0.02, G:0.02, T:0.21
Consensus pattern (22 bp):
AAATAAATAAATAAAAATATAA
Found at i:8581983 original size:2 final size:2
Alignment explanation
Indices: 8581976--8582000 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
8581966 CTGTAACAAG
8581976 AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT A
8582001 CTAAATTCAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:8583093 original size:18 final size:20
Alignment explanation
Indices: 8583058--8583102 Score: 67
Period size: 18 Copynumber: 2.3 Consensus size: 20
8583048 TACCTATTTG
8583058 TTTTTTGTAATTTCATTTAAT
1 TTTTTTGT-ATTTCATTTAAT
8583079 TTTTTTGT-TTT-ATTTAAT
1 TTTTTTGTATTTCATTTAAT
8583097 TTTTTT
1 TTTTTT
8583103 ACATAACTTT
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
18 13 0.54
19 3 0.12
21 8 0.33
ACGTcount: A:0.18, C:0.02, G:0.04, T:0.76
Consensus pattern (20 bp):
TTTTTTGTATTTCATTTAAT
Found at i:8596493 original size:18 final size:18
Alignment explanation
Indices: 8596458--8596517 Score: 50
Period size: 18 Copynumber: 3.1 Consensus size: 18
8596448 ACAACTCAAT
*
8596458 TTCTTTTCTCTTGATTTTTC
1 TTCTTTTCT-TT-CTTTTTC
8596478 TTCTTTTCTTTCTTTTT-
1 TTCTTTTCTTTCTTTTTC
8596495 TCTCTTTACTCCTTTCTTTTTC
1 T-TCTTT--T-CTTTCTTTTTC
8596517 T
1 T
8596518 CTCAATTGTT
Statistics
Matches: 34, Mismatches: 1, Indels: 8
0.79 0.02 0.19
Matches are distributed among these distances:
17 1 0.03
18 10 0.29
19 2 0.06
20 10 0.29
21 10 0.29
22 1 0.03
ACGTcount: A:0.03, C:0.23, G:0.02, T:0.72
Consensus pattern (18 bp):
TTCTTTTCTTTCTTTTTC
Found at i:8602500 original size:363 final size:362
Alignment explanation
Indices: 8601830--8602511 Score: 1310
Period size: 363 Copynumber: 1.9 Consensus size: 362
8601820 NNNNNNNNNN
* * *
8601830 GACTTAGTGTGACGATCATGCTTCTGCTGTGTCAGAGGCTTGGTCAAGGGATCAGCAATGTTATC
1 GACTGAGTGTGACGATCACGCTTATGCTGTGTCAGAGGCTTGGTCAAGGGATCAGCAATGTTATC
8601895 ATCTGTAGGTACTCTGCATATCTCTACATCCCCTCGATCGATAGTCTCTCAAATAAGATGGTAGC
66 ATCTGTAGGTACTCTGCATATCTCTACATCCCCTCGATCGATAGTCTCTCAAATAAGATGGTAGC
8601960 GCCTAAGTATATGTTTGGATCGCTGGTGAGATCTAGGTTCTTTAGCTTGTGCAATGGCTCCATTG
131 GCCTAAGTATATGTTTGGATCGCTGGTGAGATCTAGGTTCTTTAGCTTGTGCAATGGCTCCATTG
8602025 TTATCACATCAAAGTTCTATAGCATCTGATATGCTAGGCACAACCTCTAATTCAGTAATTAAATT
196 TTATCACATCAAAGTTCTATAGCATCTGATATGCTAGGCACAACCTCTAATTCAGTAATTAAATT
8602090 TTTTATCCAAACCGCTTATTTTGCTGCCTCACTGGCTGCAATATACTCGGCCTCTGTTGNCCACT
261 TTTTATCCAAACCGCTTATTTTGCTGCCTCACTGGCTGCAATATACTCGGCCTCTGTTG-CCACT
8602155 AGCACTAAGACCAATCACTTATATATCTAATACCAAGC
325 AGCACTAAGACCAATCACTTATATATCTAATACCAAGC
8602193 GACTGAGTGTGACGATCACGCTTATGCTGTGTCAGAGGCTTGGTCAAGGGATCAGCAATGTTATC
1 GACTGAGTGTGACGATCACGCTTATGCTGTGTCAGAGGCTTGGTCAAGGGATCAGCAATGTTATC
8602258 ATCTGTAGGTACTCTGCATATCTCTACATCCCCTCGATCGATAGTCTCTCAAATAAGATGGTAGC
66 ATCTGTAGGTACTCTGCATATCTCTACATCCCCTCGATCGATAGTCTCTCAAATAAGATGGTAGC
8602323 GCCTAAGTATATGTTTGGATCGCTGGTGAGATCTAGGTTCTTTAGCTTGTGCAATGGCTCCATTG
131 GCCTAAGTATATGTTTGGATCGCTGGTGAGATCTAGGTTCTTTAGCTTGTGCAATGGCTCCATTG
**
8602388 TTATCACATCGGAGTTCTATAGCATCTGATATGCTAGGCACAACCTCTAATTCAGTAATTAAATT
196 TTATCACATCAAAGTTCTATAGCATCTGATATGCTAGGCACAACCTCTAATTCAGTAATTAAATT
8602453 TTTTATCCAAACCGCTTATTTTGCTGCCTCACTGGCTGCAATATACTCGGCCTCTGTTG
261 TTTTATCCAAACCGCTTATTTTGCTGCCTCACTGGCTGCAATATACTCGGCCTCTGTTG
8602512 TAGAATCAGC
Statistics
Matches: 314, Mismatches: 5, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
363 314 1.00
ACGTcount: A:0.25, C:0.22, G:0.20, T:0.33
Consensus pattern (362 bp):
GACTGAGTGTGACGATCACGCTTATGCTGTGTCAGAGGCTTGGTCAAGGGATCAGCAATGTTATC
ATCTGTAGGTACTCTGCATATCTCTACATCCCCTCGATCGATAGTCTCTCAAATAAGATGGTAGC
GCCTAAGTATATGTTTGGATCGCTGGTGAGATCTAGGTTCTTTAGCTTGTGCAATGGCTCCATTG
TTATCACATCAAAGTTCTATAGCATCTGATATGCTAGGCACAACCTCTAATTCAGTAATTAAATT
TTTTATCCAAACCGCTTATTTTGCTGCCTCACTGGCTGCAATATACTCGGCCTCTGTTGCCACTA
GCACTAAGACCAATCACTTATATATCTAATACCAAGC
Found at i:8607111 original size:16 final size:16
Alignment explanation
Indices: 8607090--8607120 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
8607080 TTGGGCTATA
*
8607090 ACTATGCATTTCAAAC
1 ACTATGCATGTCAAAC
8607106 ACTATGCATGTCAAA
1 ACTATGCATGTCAAA
8607121 AATAGCATAC
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.39, C:0.23, G:0.10, T:0.29
Consensus pattern (16 bp):
ACTATGCATGTCAAAC
Found at i:8608941 original size:20 final size:20
Alignment explanation
Indices: 8608913--8608952 Score: 71
Period size: 20 Copynumber: 2.0 Consensus size: 20
8608903 CGTTGTCCTA
*
8608913 TCCAGCAATAATACTTGACT
1 TCCAACAATAATACTTGACT
8608933 TCCAACAATAATACTTGACT
1 TCCAACAATAATACTTGACT
8608953 AAGGAACTTT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.38, C:0.25, G:0.07, T:0.30
Consensus pattern (20 bp):
TCCAACAATAATACTTGACT
Found at i:8611442 original size:7 final size:7
Alignment explanation
Indices: 8611406--8611467 Score: 53
Period size: 7 Copynumber: 9.3 Consensus size: 7
8611396 AGGGAACCCA
8611406 ATTTTAT
1 ATTTTAT
8611413 -TTTTAT
1 ATTTTAT
8611419 -TTTT-T
1 ATTTTAT
*
8611424 CCTTTTATT
1 -ATTTTA-T
8611433 ATTTTAT
1 ATTTTAT
8611440 ATTTTAT
1 ATTTTAT
8611447 A-TTTAT
1 ATTTTAT
*
8611453 -TTTTCT
1 ATTTTAT
8611459 ATTTTAT
1 ATTTTAT
8611466 AT
1 AT
8611468 GCTTTATTTT
Statistics
Matches: 46, Mismatches: 3, Indels: 12
0.75 0.05 0.20
Matches are distributed among these distances:
5 1 0.02
6 19 0.41
7 20 0.43
8 5 0.11
9 1 0.02
ACGTcount: A:0.21, C:0.05, G:0.00, T:0.74
Consensus pattern (7 bp):
ATTTTAT
Found at i:8614789 original size:15 final size:14
Alignment explanation
Indices: 8614769--8614817 Score: 62
Period size: 15 Copynumber: 3.3 Consensus size: 14
8614759 ATTGGTCGGC
8614769 ATGTGTTCTATTTTG
1 ATGTGTTCT-TTTTG
*
8614784 ATGTGTTCTGTTTG
1 ATGTGTTCTTTTTG
8614798 AATGTGTTCTGTTTTG
1 -ATGTGTTCT-TTTTG
8614814 ATGT
1 ATGT
8614818 TGTCAATATT
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
14 4 0.13
15 22 0.73
16 4 0.13
ACGTcount: A:0.12, C:0.06, G:0.24, T:0.57
Consensus pattern (14 bp):
ATGTGTTCTTTTTG
Found at i:8615520 original size:2 final size:2
Alignment explanation
Indices: 8615513--8615541 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
8615503 CTTGTCAAAA
8615513 TG TG TG TG TG TG TG TG TG TG TG TG TG TG T
1 TG TG TG TG TG TG TG TG TG TG TG TG TG TG T
8615542 TTTTTATGCC
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.00, C:0.00, G:0.48, T:0.52
Consensus pattern (2 bp):
TG
Found at i:8615891 original size:16 final size:17
Alignment explanation
Indices: 8615848--8615897 Score: 59
Period size: 18 Copynumber: 3.0 Consensus size: 17
8615838 ATTAAGAATT
* *
8615848 TTATGAAATTATATATCA
1 TTATTAAATTATAT-TTA
8615866 TTATTAAATTATATTTA
1 TTATTAAATTATATTTA
8615883 TTATT-AATTAT-TTTA
1 TTATTAAATTATATTTA
8615898 AATTGTTTAA
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
15 4 0.13
16 6 0.20
17 7 0.23
18 13 0.43
ACGTcount: A:0.40, C:0.02, G:0.02, T:0.56
Consensus pattern (17 bp):
TTATTAAATTATATTTA
Found at i:8616188 original size:16 final size:16
Alignment explanation
Indices: 8616167--8616208 Score: 52
Period size: 15 Copynumber: 2.7 Consensus size: 16
8616157 TTATTAAATT
*
8616167 ATATATTTTAATTATA
1 ATATATTTTAATAATA
8616183 ATATA-TTTAATAATA
1 ATATATTTTAATAATA
8616198 AT-TATGTTTAA
1 ATATAT-TTTAA
8616209 ATATGATTAA
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
14 2 0.09
15 11 0.48
16 10 0.43
ACGTcount: A:0.45, C:0.00, G:0.02, T:0.52
Consensus pattern (16 bp):
ATATATTTTAATAATA
Found at i:8616193 original size:15 final size:15
Alignment explanation
Indices: 8616158--8616199 Score: 52
Period size: 15 Copynumber: 2.9 Consensus size: 15
8616148 TTAAGAATTT
*
8616158 TATTAAATTAT-ATA
1 TATTTAATTATAATA
8616172 T-TTTAATTATAATA
1 TATTTAATTATAATA
*
8616186 TATTTAATAATAAT
1 TATTTAATTATAAT
8616200 TATGTTTAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
13 8 0.33
14 5 0.21
15 11 0.46
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (15 bp):
TATTTAATTATAATA
Found at i:8616434 original size:45 final size:44
Alignment explanation
Indices: 8616353--8616443 Score: 123
Period size: 45 Copynumber: 2.0 Consensus size: 44
8616343 ACCTCTATTC
* *
8616353 CATTCAACCAAACACAAGAATACTATTACGCCTCTATTCCATTA
1 CATTCAACCAAACACAAGAATACTATTACACCTCTATTACATTA
8616397 CATTCAACCAAACAACAATTG-AT-CTATTACACCTCTATTACATTA
1 CATTCAACCAAAC-ACAA--GAATACTATTACACCTCTATTACATTA
8616442 CA
1 CA
8616444 CCTCTATTCC
Statistics
Matches: 42, Mismatches: 2, Indels: 5
0.86 0.04 0.10
Matches are distributed among these distances:
44 13 0.31
45 26 0.62
46 2 0.05
47 1 0.02
ACGTcount: A:0.40, C:0.29, G:0.03, T:0.29
Consensus pattern (44 bp):
CATTCAACCAAACACAAGAATACTATTACACCTCTATTACATTA
Found at i:8616443 original size:16 final size:16
Alignment explanation
Indices: 8616422--8616491 Score: 104
Period size: 16 Copynumber: 4.4 Consensus size: 16
8616412 CAATTGATCT
*
8616422 ATTACACCTCTATTAC
1 ATTACACCTCTATTCC
8616438 ATTACACCTCTATTCC
1 ATTACACCTCTATTCC
*
8616454 ATTACGCCTCTATTCC
1 ATTACACCTCTATTCC
*
8616470 ATTACGCCTCTATTCC
1 ATTACACCTCTATTCC
*
8616486 AATACA
1 ATTACA
8616492 GCGAACCAAA
Statistics
Matches: 50, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 50 1.00
ACGTcount: A:0.27, C:0.34, G:0.03, T:0.36
Consensus pattern (16 bp):
ATTACACCTCTATTCC
Found at i:8621263 original size:10 final size:8
Alignment explanation
Indices: 8621219--8621252 Score: 50
Period size: 8 Copynumber: 4.1 Consensus size: 8
8621209 ACCCACAGAA
8621219 TATTTTTT
1 TATTTTTT
*
8621227 AAATTTTTT
1 -TATTTTTT
8621236 TATTTTTT
1 TATTTTTT
8621244 TATTTTTT
1 TATTTTTT
8621252 T
1 T
8621253 GTACTTTTTT
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
8 16 0.70
9 7 0.30
ACGTcount: A:0.18, C:0.00, G:0.00, T:0.82
Consensus pattern (8 bp):
TATTTTTT
Found at i:8626614 original size:60 final size:59
Alignment explanation
Indices: 8626520--8626646 Score: 193
Period size: 60 Copynumber: 2.1 Consensus size: 59
8626510 GTATAGATAG
* *
8626520 CCACAAAGTCGTCACATATAACAGAATCACCCACAAAGCCTTCCCATATAATATATTCCA
1 CCACAAAGTCGTCACATATAACAGAATCACCCACAAAGACTT-CCATATAACATATTCCA
* *
8626580 CCACAAA-TGCGTCACATATAACAGAATCAGCCACAATGACTTCCATATAACATATTCCA
1 CCACAAAGT-CGTCACATATAACAGAATCACCCACAAAGACTTCCATATAACATATTCCA
8626639 CCACAAAG
1 CCACAAAG
8626647 GCTCTCAAAT
Statistics
Matches: 61, Mismatches: 4, Indels: 4
0.88 0.06 0.06
Matches are distributed among these distances:
59 24 0.39
60 37 0.61
ACGTcount: A:0.41, C:0.31, G:0.08, T:0.20
Consensus pattern (59 bp):
CCACAAAGTCGTCACATATAACAGAATCACCCACAAAGACTTCCATATAACATATTCCA
Found at i:8626686 original size:59 final size:60
Alignment explanation
Indices: 8626520--8626690 Score: 190
Period size: 59 Copynumber: 2.9 Consensus size: 60
8626510 GTATAGATAG
* * * * *
8626520 CCACAAAGTCGTCACATATAACAGAATCACCCACAAA-GCCTTCCCATATAATATATTCCA
1 CCACAAAGGCGTCACAAATAACAGAATCAGCCACAAATGACTT-CCATATAACATATTCCA
* *
8626580 CCACAAATGCGTCACATATAACAGAATCAGCCAC-AATGACTTCCATATAACATATTCCA
1 CCACAAAGGCGTCACAAATAACAGAATCAGCCACAAATGACTTCCATATAACATATTCCA
* * *
8626639 CCACAAAGGC-TCTCAAATAACATATTTC-GCCACAAATG-CTTCACATATAACA
1 CCACAAAGGCGTCACAAATAACAGA-ATCAGCCACAAATGACTTC-CATATAACA
8626691 GAATCAGACA
Statistics
Matches: 97, Mismatches: 10, Indels: 9
0.84 0.09 0.08
Matches are distributed among these distances:
58 20 0.21
59 42 0.43
60 35 0.36
ACGTcount: A:0.40, C:0.30, G:0.08, T:0.22
Consensus pattern (60 bp):
CCACAAAGGCGTCACAAATAACAGAATCAGCCACAAATGACTTCCATATAACATATTCCA
Found at i:8626703 original size:30 final size:30
Alignment explanation
Indices: 8626518--8626716 Score: 137
Period size: 30 Copynumber: 6.7 Consensus size: 30
8626508 TAGTATAGAT
*
8626518 AGCCACAAA-GTCGTCACATATAACAGAATC
1 AGCCACAAATG-CTTCACATATAACAGAATC
* * * * *
8626548 ACCCACAAA-GCCTTCCCATATAATATATTCC
1 AGCCACAAATG-CTTCACATATAACAGAAT-C
*
8626579 A-CCACAAATGCGTCACATATAACAGAATC
1 AGCCACAAATGCTTCACATATAACAGAATC
* *
8626608 AGCCAC-AATGACTTC-CATATAACATATTCC
1 AGCCACAAATG-CTTCACATATAACAGAAT-C
* * *
8626638 A-CCACAAAGGCTCTCA-A-ATAACATATTTC
1 AGCCACAAATGCT-TCACATATAACAGA-ATC
8626667 -GCCACAAATGCTTCACATATAACAGAATC
1 AGCCACAAATGCTTCACATATAACAGAATC
* *
8626696 AGACACAAAGGCTTTCACATA
1 AGCCACAAATGC-TTCACATA
8626717 ATAGAATCAG
Statistics
Matches: 134, Mismatches: 21, Indels: 27
0.74 0.12 0.15
Matches are distributed among these distances:
28 3 0.02
29 45 0.34
30 75 0.56
31 11 0.08
ACGTcount: A:0.41, C:0.29, G:0.09, T:0.22
Consensus pattern (30 bp):
AGCCACAAATGCTTCACATATAACAGAATC
Found at i:8633530 original size:44 final size:44
Alignment explanation
Indices: 8633474--8633561 Score: 167
Period size: 44 Copynumber: 2.0 Consensus size: 44
8633464 TATAATAAAA
*
8633474 TTATATTTTGAAGGCTTGTTATTAAATTAAACCTAGTTAAAATG
1 TTATAATTTGAAGGCTTGTTATTAAATTAAACCTAGTTAAAATG
8633518 TTATAATTTGAAGGCTTGTTATTAAATTAAACCTAGTTAAAATG
1 TTATAATTTGAAGGCTTGTTATTAAATTAAACCTAGTTAAAATG
8633562 ATCAAATGCA
Statistics
Matches: 43, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
44 43 1.00
ACGTcount: A:0.38, C:0.07, G:0.14, T:0.42
Consensus pattern (44 bp):
TTATAATTTGAAGGCTTGTTATTAAATTAAACCTAGTTAAAATG
Found at i:8640778 original size:11 final size:12
Alignment explanation
Indices: 8640750--8640778 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
8640740 ACTTGAACAC
8640750 CACTTTCTCAAT
1 CACTTTCTCAAT
8640762 CACTTTCTCAA-
1 CACTTTCTCAAT
8640773 CACTTT
1 CACTTT
8640779 TAATTAGGGG
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
11 6 0.35
12 11 0.65
ACGTcount: A:0.24, C:0.34, G:0.00, T:0.41
Consensus pattern (12 bp):
CACTTTCTCAAT
Found at i:8648163 original size:5 final size:5
Alignment explanation
Indices: 8648153--8648182 Score: 60
Period size: 5 Copynumber: 6.0 Consensus size: 5
8648143 ATTGAATATG
8648153 TAAAA TAAAA TAAAA TAAAA TAAAA TAAAA
1 TAAAA TAAAA TAAAA TAAAA TAAAA TAAAA
8648183 AGGATAAAAA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 25 1.00
ACGTcount: A:0.80, C:0.00, G:0.00, T:0.20
Consensus pattern (5 bp):
TAAAA
Found at i:8649215 original size:44 final size:43
Alignment explanation
Indices: 8649143--8649779 Score: 305
Period size: 44 Copynumber: 14.8 Consensus size: 43
8649133 GTCTTATACG
* *
8649143 ATCTGCTCTACTGCAGCTTCA-GAGAGATAAGATCTGTGTTTTTA
1 ATCTGCTCCACTGCAACTTCAGGA-AGATAAGATCTG-GTTTTTA
* * * *
8649187 ATCCGCTCCACTGCAAATTCAGGAAGATAGGAT-TGGTTTCTTCC
1 ATCTGCTCCACTGCAACTTCAGGAAGATAAGATCTGGTTT-TT-A
* * * * ***
8649231 GTCTACTCCACTGCAACTTCAGTG-AGATAAGA-CTAG-ATGCG
1 ATCTGCTCCACTGCAACTTCAG-GAAGATAAGATCTGGTTTTTA
*
8649272 ATCTGCTCTACTGCAACTTCA-GAGAGATAAGATCTGTGTTTTTA
1 ATCTGCTCCACTGCAACTTCAGGA-AGATAAGATCTG-GTTTTTA
* * * *
8649316 ATCTTCTCTACTGCAACTTCAGGAAGATAGGAT-TGGTTTCTTCT
1 ATCTGCTCCACTGCAACTTCAGGAAGATAAGATCTGGTTT-TT-A
* * * ***
8649360 TTCTGCTCCACTGCAACTTCAGTG-AGACAAGA-CTGG-ATGCG
1 ATCTGCTCCACTGCAACTTCAG-GAAGATAAGATCTGGTTTTTA
* * *
8649401 ATCTGCTCTACTGTAACTTTA-GAGAGATAAGATCTGTGTTTTTA
1 ATCTGCTCCACTGCAACTTCAGGA-AGATAAGATCTG-GTTTTTA
* *
8649445 ATCCGCTCCACTGCAACTTCAGGAAGATAGGAT-TGGATTCTTCT-
1 ATCTGCTCCACTGCAACTTCAGGAAGATAAGATCTGG-TT-TT-TA
* * * * * ***
8649489 GTCTGCTCCACTGCAACTTTAGGGAGATTAGA-CTGG-ATGCG
1 ATCTGCTCCACTGCAACTTCAGGAAGATAAGATCTGGTTTTTA
* * * * *
8649530 ATCTGCTCTACTGCAACTTTAGGGAGATAGGAT-TGGTTTCTTCT
1 ATCTGCTCCACTGCAACTTCAGGAAGATAAGATCTGGTTT-TT-A
* * * * ***
8649574 ATCTACTCCATTGCAACTTTA-GAGAGATAAGA-CTGG-ATGCG
1 ATCTGCTCCACTGCAACTTCAGGA-AGATAAGATCTGGTTTTTA
* **
8649615 ATCTGCTCTACTGCAACTTCA-GAGAGATAAGATCTATATTTTTA
1 ATCTGCTCCACTGCAACTTCAGGA-AGATAAGATCT-GGTTTTTA
* * *
8649659 ATCTGCTCCACTGCAACTTCAGGGAGATAGGAT-TGGTTTCTTCT
1 ATCTGCTCCACTGCAACTTCAGGAAGATAAGATCTGGTTT-TT-A
* * * * * * * * *
8649703 GTCTACTTCACTACAACTTCAGGGAGATAAGA-CTAG-ATGTG
1 ATCTGCTCCACTGCAACTTCAGGAAGATAAGATCTGGTTTTTA
* *
8649744 ATCTGCTCTACTACAACTTCA-GAGAGATAAGATCTG
1 ATCTGCTCCACTGCAACTTCAGGA-AGATAAGATCTG
8649780 TTATCTTCAG
Statistics
Matches: 445, Mismatches: 107, Indels: 84
0.70 0.17 0.13
Matches are distributed among these distances:
39 2 0.00
40 1 0.00
41 135 0.30
42 23 0.05
43 22 0.05
44 252 0.57
45 10 0.02
ACGTcount: A:0.26, C:0.21, G:0.21, T:0.32
Consensus pattern (43 bp):
ATCTGCTCCACTGCAACTTCAGGAAGATAAGATCTGGTTTTTA
Found at i:8649294 original size:129 final size:129
Alignment explanation
Indices: 8649141--8649558 Score: 674
Period size: 129 Copynumber: 3.2 Consensus size: 129
8649131 AAGTCTTATA
* *
8649141 CGATCTGCTCTACTGCAGCTTCAGAGAGATAAGATCTGTGTTTTTAATCCGCTCCACTGCAAATT
1 CGATCTGCTCTACTGCAACTTCAGAGAGATAAGATCTGTGTTTTTAATCCGCTCCACTGCAACTT
* * *
8649206 CAGGAAGATAGGATTGGTTTCTTCCGTCTACTCCACTGCAACTTCAGTGAGATAAGACTAGATG
66 CAGGAAGATAGGATTGGTTTCTTCTGTCTGCTCCACTGCAACTTCAGTGAGATAAGACTGGATG
** *
8649270 CGATCTGCTCTACTGCAACTTCAGAGAGATAAGATCTGTGTTTTTAATCTTCTCTACTGCAACTT
1 CGATCTGCTCTACTGCAACTTCAGAGAGATAAGATCTGTGTTTTTAATCCGCTCCACTGCAACTT
* *
8649335 CAGGAAGATAGGATTGGTTTCTTCTTTCTGCTCCACTGCAACTTCAGTGAGACAAGACTGGATG
66 CAGGAAGATAGGATTGGTTTCTTCTGTCTGCTCCACTGCAACTTCAGTGAGATAAGACTGGATG
* *
8649399 CGATCTGCTCTACTGTAACTTTAGAGAGATAAGATCTGTGTTTTTAATCCGCTCCACTGCAACTT
1 CGATCTGCTCTACTGCAACTTCAGAGAGATAAGATCTGTGTTTTTAATCCGCTCCACTGCAACTT
* * * *
8649464 CAGGAAGATAGGATTGGATTCTTCTGTCTGCTCCACTGCAACTTTAGGGAGATTAGACTGGATG
66 CAGGAAGATAGGATTGGTTTCTTCTGTCTGCTCCACTGCAACTTCAGTGAGATAAGACTGGATG
* *
8649528 CGATCTGCTCTACTGCAACTTTAGGGAGATA
1 CGATCTGCTCTACTGCAACTTCAGAGAGATA
8649559 GGATTGGTTT
Statistics
Matches: 266, Mismatches: 23, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
129 266 1.00
ACGTcount: A:0.25, C:0.22, G:0.21, T:0.32
Consensus pattern (129 bp):
CGATCTGCTCTACTGCAACTTCAGAGAGATAAGATCTGTGTTTTTAATCCGCTCCACTGCAACTT
CAGGAAGATAGGATTGGTTTCTTCTGTCTGCTCCACTGCAACTTCAGTGAGATAAGACTGGATG
Found at i:8649329 original size:85 final size:84
Alignment explanation
Indices: 8649143--8649775 Score: 354
Period size: 85 Copynumber: 7.4 Consensus size: 84
8649133 GTCTTATACG
* * * *** * * *
8649143 ATCTGCTCTACTGCAGCTTCAGAGAGATAAGATCTGTGTTTTTAATCCGCTCCACTGCAAATTCA
1 ATCTGCTCCACTGCAACTTCAGAGAGATAAGA-CTG-G-ATGCGATCTGCTCTACTGCAACTTCA
* *
8649208 G-GAAGATAGGAT-TGGTTTCTTCC
63 GAG-AGATAAGATCTGGTTT-TT-A
* * * *
8649231 GTCTACTCCACTGCAACTTCAGTGAGATAAGACTAGATGCGATCTGCTCTACTGCAACTTCAGAG
1 ATCTGCTCCACTGCAACTTCAGAGAGATAAGACTGGATGCGATCTGCTCTACTGCAACTTCAGAG
8649296 AGATAAGATCTGTGTTTTTA
66 AGATAAGATCTG-GTTTTTA
* * * * * * ** *
8649316 ATCTTCTCTACTGCAACTTCAG-GAAGATAGGATTGGTTTCTTCTTTCTGCTCCACTGCAACTTC
1 ATCTGCTCCACTGCAACTTCAGAG-AGATAAGACTGG---ATGCGATCTGCTCTACTGCAACTTC
* * * ***
8649380 AGTGAGACAAGA-CTGG-ATGCG
62 AGAGAGATAAGATCTGGTTTTTA
* * * * *** * *
8649401 ATCTGCTCTACTGTAACTTTAGAGAGATAAGATCTGTGTTTTTAATCCGCTCCACTGCAACTTCA
1 ATCTGCTCCACTGCAACTTCAGAGAGATAAGA-CTG-G-ATGCGATCTGCTCTACTGCAACTTCA
*
8649466 G-GAAGATAGGAT-TGGATTCTTCT-
63 GAG-AGATAAGATCTGG-TT-TT-TA
* * * * * *
8649489 GTCTGCTCCACTGCAACTTTAGGGAGATTAGACTGGATGCGATCTGCTCTACTGCAACTTTAGGG
1 ATCTGCTCCACTGCAACTTCAGAGAGATAAGACTGGATGCGATCTGCTCTACTGCAACTTCAGAG
* *
8649554 AGATAGGAT-TGGTTTCTTCT
66 AGATAAGATCTGGTTT-TT-A
* * *
8649574 ATCTACTCCATTGCAACTTTAGAGAGATAAGACTGGATGCGATCTGCTCTACTGCAACTTCAGAG
1 ATCTGCTCCACTGCAACTTCAGAGAGATAAGACTGGATGCGATCTGCTCTACTGCAACTTCAGAG
**
8649639 AGATAAGATCTATATTTTTA
66 AGATAAGATCT-GGTTTTTA
* * * * * * *
8649659 ATCTGCTCCACTGCAACTTCAGGGAGATAGGATTGGTTTC-TTCTGTCTACTTCACTACAACTTC
1 ATCTGCTCCACTGCAACTTCAGAGAGATAAGACTGGATGCGATCTG-CT-C-T-ACTGCAACTTC
* * * * *
8649723 AGGGAGATAAGA-CTAG-ATGTG
62 AGAGAGATAAGATCTGGTTTTTA
* *
8649744 ATCTGCTCTACTACAACTTCAGAGAGATAAGA
1 ATCTGCTCCACTGCAACTTCAGAGAGATAAGA
8649776 TCTGTTATCT
Statistics
Matches: 429, Mismatches: 90, Indels: 55
0.75 0.16 0.10
Matches are distributed among these distances:
83 2 0.00
84 9 0.02
85 277 0.65
86 16 0.04
87 19 0.04
88 106 0.25
ACGTcount: A:0.27, C:0.21, G:0.21, T:0.32
Consensus pattern (84 bp):
ATCTGCTCCACTGCAACTTCAGAGAGATAAGACTGGATGCGATCTGCTCTACTGCAACTTCAGAG
AGATAAGATCTGGTTTTTA
Found at i:8649561 original size:214 final size:214
Alignment explanation
Indices: 8649316--8649772 Score: 689
Period size: 214 Copynumber: 2.1 Consensus size: 214
8649306 TGTGTTTTTA
* * * *
8649316 ATCTTCTCTACTGCAACTTCAGGAAGATAGGATTGGTTTCTTCTTTCTGCTCCACTGCAACTTCA
1 ATCTGCTCTACTGCAACTTCAGGGAGATAGGATTGGTTTCTTCTATCTACTCCACTGCAACTTCA
* * * * *
8649381 GTGAGACAAGACTGGATGCGATCTGCTCTACTGTAACTTTAGAGAGATAAGATCTGTGTTTTTAA
66 GAGAGACAAGACTGGATGCGATCTGCTCTACTGCAACTTCAGAGAGATAAGATCTATATTTTTAA
* * *
8649446 TCCGCTCCACTGCAACTTCAGGAAGATAGGATTGGATTCTTCTGTCTGCTCCACTGCAACTTTAG
131 TCCGCTCCACTGCAACTTCAGGAAGATAGGATTGGATTCTTCTGTCTACTCCACTACAACTTCAG
* *
8649511 GGAGATTAGACTGGATGCG
196 GGAGATAAGACTAGATGCG
* * *
8649530 ATCTGCTCTACTGCAACTTTAGGGAGATAGGATTGGTTTCTTCTATCTACTCCATTGCAACTTTA
1 ATCTGCTCTACTGCAACTTCAGGGAGATAGGATTGGTTTCTTCTATCTACTCCACTGCAACTTCA
*
8649595 GAGAGATAAGACTGGATGCGATCTGCTCTACTGCAACTTCAGAGAGATAAGATCTATATTTTTAA
66 GAGAGACAAGACTGGATGCGATCTGCTCTACTGCAACTTCAGAGAGATAAGATCTATATTTTTAA
* * * *
8649660 TCTGCTCCACTGCAACTTCAGGGAGATAGGATTGGTTTCTTCTGTCTACTTCACTACAACTTCAG
131 TCCGCTCCACTGCAACTTCAGGAAGATAGGATTGGATTCTTCTGTCTACTCCACTACAACTTCAG
*
8649725 GGAGATAAGACTAGATGTG
196 GGAGATAAGACTAGATGCG
* *
8649744 ATCTGCTCTACTACAACTTCAGAGAGATA
1 ATCTGCTCTACTGCAACTTCAGGGAGATA
8649773 AGATCTGTTA
Statistics
Matches: 217, Mismatches: 26, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
214 217 1.00
ACGTcount: A:0.26, C:0.21, G:0.21, T:0.32
Consensus pattern (214 bp):
ATCTGCTCTACTGCAACTTCAGGGAGATAGGATTGGTTTCTTCTATCTACTCCACTGCAACTTCA
GAGAGACAAGACTGGATGCGATCTGCTCTACTGCAACTTCAGAGAGATAAGATCTATATTTTTAA
TCCGCTCCACTGCAACTTCAGGAAGATAGGATTGGATTCTTCTGTCTACTCCACTACAACTTCAG
GGAGATAAGACTAGATGCG
Found at i:8649583 original size:129 final size:129
Alignment explanation
Indices: 8649141--8649731 Score: 642
Period size: 129 Copynumber: 4.6 Consensus size: 129
8649131 AAGTCTTATA
* ** *
8649141 CGATCTGCTCTACTGCAGCTTCAGAGAGATAAGATCTGTGTTTTTAATCCGCTCCACTGCAAATT
1 CGATCTGCTCTACTGCAACTTCAGAGAGATAAGATCTGTGTTTTTAATCTACTCCACTGCAACTT
* * *
8649206 CAGGAAGATAGGATTGGTTTCTTCCGTCTACTCCACTGCAACTTCAGTGAGATAAGACTAGATG
66 CAGGAAGATAGGATTGGATTCTTCTGTCTGCTCCACTGCAACTTCAGTGAGATAAGACTAGATG
* *
8649270 CGATCTGCTCTACTGCAACTTCAGAGAGATAAGATCTGTGTTTTTAATCTTCTCTACTGCAACTT
1 CGATCTGCTCTACTGCAACTTCAGAGAGATAAGATCTGTGTTTTTAATCTACTCCACTGCAACTT
* * * *
8649335 CAGGAAGATAGGATTGGTTTCTTCTTTCTGCTCCACTGCAACTTCAGTGAGACAAGACTGGATG
66 CAGGAAGATAGGATTGGATTCTTCTGTCTGCTCCACTGCAACTTCAGTGAGATAAGACTAGATG
* * **
8649399 CGATCTGCTCTACTGTAACTTTAGAGAGATAAGATCTGTGTTTTTAATCCGCTCCACTGCAACTT
1 CGATCTGCTCTACTGCAACTTCAGAGAGATAAGATCTGTGTTTTTAATCTACTCCACTGCAACTT
* * * *
8649464 CAGGAAGATAGGATTGGATTCTTCTGTCTGCTCCACTGCAACTTTAGGGAGATTAGACTGGATG
66 CAGGAAGATAGGATTGGATTCTTCTGTCTGCTCCACTGCAACTTCAGTGAGATAAGACTAGATG
* * * * *
8649528 CGATCTGCTCTACTGCAACTTTAGGGAGATAGGAT-TG-GTTTCTTCTATCTACTCCATTGCAAC
1 CGATCTGCTCTACTGCAACTTCAGAGAGATAAGATCTGTGTTT-TT-AATCTACTCCACTGCAAC
* * * * * *
8649591 TTTA-GAGAGATAAGACTGGA---TGC-GATCTGCTCTACTGCAACTTCAGAGAGATAAGATCTA
64 TTCAGGA-AGATAGGATTGGATTCTTCTG-TCTGCTCCACTGCAACTTCAGTGAGATAAGA-CTA
* *
8649651 TATTTT
126 GA--TG
** * * * ** * *
8649657 TAATCTGCTCCACTGCAACTTCAGGGAGATAGGAT-TG-GTTTCTTCTGTCTACTTCACTACAAC
1 CGATCTGCTCTACTGCAACTTCAGAGAGATAAGATCTGTGTTT-TT-AATCTACTCCACTGCAAC
*
8649720 TTCAGGGAGATA
64 TTCAGGAAGATA
8649732 AGACTAGATG
Statistics
Matches: 405, Mismatches: 49, Indels: 16
0.86 0.10 0.03
Matches are distributed among these distances:
125 1 0.00
126 29 0.07
127 7 0.02
128 6 0.01
129 361 0.89
130 1 0.00
ACGTcount: A:0.26, C:0.21, G:0.21, T:0.32
Consensus pattern (129 bp):
CGATCTGCTCTACTGCAACTTCAGAGAGATAAGATCTGTGTTTTTAATCTACTCCACTGCAACTT
CAGGAAGATAGGATTGGATTCTTCTGTCTGCTCCACTGCAACTTCAGTGAGATAAGACTAGATG
Found at i:8649732 original size:129 final size:129
Alignment explanation
Indices: 8649530--8649778 Score: 399
Period size: 129 Copynumber: 1.9 Consensus size: 129
8649520 ACTGGATGCG
* * * * *
8649530 ATCTGCTCTACTGCAACTTTAGGGAGATAGGATTGGTTTCTTCTATCTACTCCATTGCAACTTTA
1 ATCTGCTCCACTGCAACTTCAGGGAGATAGGATTGGTTTCTTCTATCTACTCCACTACAACTTCA
* *
8649595 GAGAGATAAGACTGGATGCGATCTGCTCTACTGCAACTTCAGAGAGATAAGATCTATATTTTTA
66 GAGAGATAAGACTAGATGCGATCTGCTCTACTACAACTTCAGAGAGATAAGATCTATATTTTTA
* *
8649659 ATCTGCTCCACTGCAACTTCAGGGAGATAGGATTGGTTTCTTCTGTCTACTTCACTACAACTTCA
1 ATCTGCTCCACTGCAACTTCAGGGAGATAGGATTGGTTTCTTCTATCTACTCCACTACAACTTCA
* *
8649724 GGGAGATAAGACTAGATGTGATCTGCTCTACTACAACTTCAGAGAGATAAGATCT
66 GAGAGATAAGACTAGATGCGATCTGCTCTACTACAACTTCAGAGAGATAAGATCT
8649779 GTTATCTTCA
Statistics
Matches: 109, Mismatches: 11, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
129 109 1.00
ACGTcount: A:0.28, C:0.20, G:0.20, T:0.32
Consensus pattern (129 bp):
ATCTGCTCCACTGCAACTTCAGGGAGATAGGATTGGTTTCTTCTATCTACTCCACTACAACTTCA
GAGAGATAAGACTAGATGCGATCTGCTCTACTACAACTTCAGAGAGATAAGATCTATATTTTTA
Found at i:8649839 original size:45 final size:45
Alignment explanation
Indices: 8649772--8650145 Score: 389
Period size: 45 Copynumber: 8.4 Consensus size: 45
8649762 TCAGAGAGAT
*
8649772 AAGATCTGTTATCTTC-AGTCTACTTCGCTGCCAATACAGGAAGAC
1 AAGATCTGCTATCTTCGA-TCTACTTCGCTGCCAATACAGGAAGAC
* * *
8649817 AAGATTTGCTATCTTCGATCTACCTCGCTGCTAATACAGGAAGAC
1 AAGATCTGCTATCTTCGATCTACTTCGCTGCCAATACAGGAAGAC
* * * * * *** * *
8649862 AAGATCTACAATCTTCGACCTACTCCACTGCTGCT-CAGGGAGAT
1 AAGATCTGCTATCTTCGATCTACTTCGCTGCCAATACAGGAAGAC
* * *
8649906 AAGATCTGCTATCTTCGATCCACTTCGTTGCCAATACAAGAAGAC
1 AAGATCTGCTATCTTCGATCTACTTCGCTGCCAATACAGGAAGAC
*
8649951 AAGATCTGCTATCTTCGACCTACTTCGCTGCCAATACAGGAAGAC
1 AAGATCTGCTATCTTCGATCTACTTCGCTGCCAATACAGGAAGAC
* *
8649996 AAGATCTGTTATCTT-TAGTCTACTTCGCTGCCAATACAGGAAGAC
1 AAGATCTGCTATCTTCGA-TCTACTTCGCTGCCAATACAGGAAGAC
* * *
8650041 AAGA-CTTGCTATCTTTGATCTATTTCGCTGCCAATACAGGAAAAC
1 AAGATC-TGCTATCTTCGATCTACTTCGCTGCCAATACAGGAAGAC
* * * * ** * * * *
8650086 AAGATCTACAATCTTCGACCTACTCCATTGCTACT-CCGGGAGAC
1 AAGATCTGCTATCTTCGATCTACTTCGCTGCCAATACAGGAAGAC
8650130 AAGATCTGCTATCTTC
1 AAGATCTGCTATCTTC
8650146 AGCCTACTCC
Statistics
Matches: 269, Mismatches: 54, Indels: 13
0.80 0.16 0.04
Matches are distributed among these distances:
44 54 0.20
45 212 0.79
46 3 0.01
ACGTcount: A:0.29, C:0.26, G:0.17, T:0.28
Consensus pattern (45 bp):
AAGATCTGCTATCTTCGATCTACTTCGCTGCCAATACAGGAAGAC
Found at i:8650010 original size:134 final size:134
Alignment explanation
Indices: 8649762--8650159 Score: 444
Period size: 134 Copynumber: 3.0 Consensus size: 134
8649752 TACTACAACT
* * *
8649762 TCAGAGAGATAAGATCTGTTATCTTC-AGTCTACTTCGCTGCCAATACAGGAAGACAAGATTTGC
1 TCAGGGAGATAAGATCTGCTATCTTCGA-TCTACTTCGCTGCCAATACAGGAAGACAAGATCTGC
* * * *
8649826 TATCTTCGATCTACCTCGCTGCTAATACAGGAAGACAAGATCTACAATCTTC-GACCTACTCCAC
65 TATCTTCGACCTACTTCGCTGCTAATACAGGAAGACAAGATCTGCTATCTTCAG-CCTACTCCAC
***
8649890 TGCTGC
129 TGCCAA
* * *
8649896 TCAGGGAGATAAGATCTGCTATCTTCGATCCACTTCGTTGCCAATACAAGAAGACAAGATCTGCT
1 TCAGGGAGATAAGATCTGCTATCTTCGATCTACTTCGCTGCCAATACAGGAAGACAAGATCTGCT
* * * * * *
8649961 ATCTTCGACCTACTTCGCTGCCAATACAGGAAGACAAGATCTGTTATCTTTAGTCTACTTCGCTG
66 ATCTTCGACCTACTTCGCTGCTAATACAGGAAGACAAGATCTGCTATCTTCAGCCTACTCCACTG
8650026 CCAA
131 CCAA
* * * * * *
8650030 TACAGGAAGACAAGA-CTTGCTATCTTTGATCTATTTCGCTGCCAATACAGGAAAACAAGATCTA
1 T-CAGGGAGATAAGATC-TGCTATCTTCGATCTACTTCGCTGCCAATACAGGAAGACAAGATCTG
* * ** * * *
8650094 CAATCTTCGACCTACTCCATTGCTACT-CCGGGAGACAAGATCTGCTATCTTCAGCCTACTCCAC
64 CTATCTTCGACCTACTTCGCTGCTAATACAGGAAGACAAGATCTGCTATCTTCAGCCTACTCCAC
8650158 TG
129 TG
8650160 TAAATTCAGG
Statistics
Matches: 219, Mismatches: 41, Indels: 8
0.82 0.15 0.03
Matches are distributed among these distances:
134 145 0.66
135 74 0.34
ACGTcount: A:0.29, C:0.26, G:0.17, T:0.28
Consensus pattern (134 bp):
TCAGGGAGATAAGATCTGCTATCTTCGATCTACTTCGCTGCCAATACAGGAAGACAAGATCTGCT
ATCTTCGACCTACTTCGCTGCTAATACAGGAAGACAAGATCTGCTATCTTCAGCCTACTCCACTG
CCAA
Found at i:8651109 original size:5 final size:5
Alignment explanation
Indices: 8651099--8651137 Score: 51
Period size: 5 Copynumber: 7.6 Consensus size: 5
8651089 TTTTTCGCTC
* *
8651099 TTCTT TTCTT TTCTTT TTCTT TTCGT TTCTT TTTTT TTC
1 TTCTT TTCTT TTC-TT TTCTT TTCTT TTCTT TTCTT TTC
8651138 AATTGAAGTA
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
5 24 0.83
6 5 0.17
ACGTcount: A:0.00, C:0.18, G:0.03, T:0.79
Consensus pattern (5 bp):
TTCTT
Found at i:8651120 original size:16 final size:16
Alignment explanation
Indices: 8651099--8651137 Score: 62
Period size: 16 Copynumber: 2.5 Consensus size: 16
8651089 TTTTTCGCTC
*
8651099 TTCTTTTCTTTTCTTT
1 TTCTTTTCGTTTCTTT
8651115 TTCTTTTCGTTTCTTT
1 TTCTTTTCGTTTCTTT
8651131 TT-TTTTC
1 TTCTTTTC
8651138 AATTGAAGTA
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
15 5 0.23
16 17 0.77
ACGTcount: A:0.00, C:0.18, G:0.03, T:0.79
Consensus pattern (16 bp):
TTCTTTTCGTTTCTTT
Found at i:8655541 original size:26 final size:29
Alignment explanation
Indices: 8655512--8655567 Score: 82
Period size: 26 Copynumber: 2.0 Consensus size: 29
8655502 CAAGATGAGT
*
8655512 AATATAGAGCAAA-TTAAAAT-A-AATAA
1 AATATAGAACAAATTTAAAATGATAATAA
8655538 AATATAGAACAAATTTAAAATGATAATAA
1 AATATAGAACAAATTTAAAATGATAATAA
8655567 A
1 A
8655568 TGAGTTTTAA
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
26 12 0.46
27 7 0.27
28 1 0.04
29 6 0.23
ACGTcount: A:0.64, C:0.04, G:0.07, T:0.25
Consensus pattern (29 bp):
AATATAGAACAAATTTAAAATGATAATAA
Found at i:8656887 original size:11 final size:11
Alignment explanation
Indices: 8656871--8656897 Score: 54
Period size: 11 Copynumber: 2.5 Consensus size: 11
8656861 TAATATGTAA
8656871 AAAAATAAAAT
1 AAAAATAAAAT
8656882 AAAAATAAAAT
1 AAAAATAAAAT
8656893 AAAAA
1 AAAAA
8656898 GGATAAAAAT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 16 1.00
ACGTcount: A:0.85, C:0.00, G:0.00, T:0.15
Consensus pattern (11 bp):
AAAAATAAAAT
Found at i:8660785 original size:64 final size:64
Alignment explanation
Indices: 8660708--8660901 Score: 388
Period size: 64 Copynumber: 3.0 Consensus size: 64
8660698 AAAAATAGTT
8660708 TCGTGTTGGGCTAAAATATTCACAAGATAGGCCCATTTTGAGCTCAACATTTTGCTTCACCACG
1 TCGTGTTGGGCTAAAATATTCACAAGATAGGCCCATTTTGAGCTCAACATTTTGCTTCACCACG
8660772 TCGTGTTGGGCTAAAATATTCACAAGATAGGCCCATTTTGAGCTCAACATTTTGCTTCACCACG
1 TCGTGTTGGGCTAAAATATTCACAAGATAGGCCCATTTTGAGCTCAACATTTTGCTTCACCACG
8660836 TCGTGTTGGGCTAAAATATTCACAAGATAGGCCCATTTTGAGCTCAACATTTTGCTTCACCACG
1 TCGTGTTGGGCTAAAATATTCACAAGATAGGCCCATTTTGAGCTCAACATTTTGCTTCACCACG
8660900 TC
1 TC
8660902 TTGCAGGTGC
Statistics
Matches: 130, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
64 130 1.00
ACGTcount: A:0.26, C:0.24, G:0.19, T:0.31
Consensus pattern (64 bp):
TCGTGTTGGGCTAAAATATTCACAAGATAGGCCCATTTTGAGCTCAACATTTTGCTTCACCACG
Found at i:8666082 original size:16 final size:16
Alignment explanation
Indices: 8666057--8666094 Score: 58
Period size: 16 Copynumber: 2.4 Consensus size: 16
8666047 TTGATTTGTT
8666057 ATTACACCTCTATTCC
1 ATTACACCTCTATTCC
*
8666073 ATTACGCCTCTATTCC
1 ATTACACCTCTATTCC
*
8666089 AATACA
1 ATTACA
8666095 GCGAACCAAA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.29, C:0.34, G:0.03, T:0.34
Consensus pattern (16 bp):
ATTACACCTCTATTCC
Found at i:8666353 original size:16 final size:16
Alignment explanation
Indices: 8666307--8666353 Score: 76
Period size: 16 Copynumber: 2.9 Consensus size: 16
8666297 TTGATTTGCT
*
8666307 ATTACGCCTCTATTGC
1 ATTACGCCTCTATTCC
8666323 ATTACGCCTCTATTCC
1 ATTACGCCTCTATTCC
*
8666339 ATTATGCCTCTATTC
1 ATTACGCCTCTATTC
8666354 TAATACAACG
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 29 1.00
ACGTcount: A:0.19, C:0.32, G:0.09, T:0.40
Consensus pattern (16 bp):
ATTACGCCTCTATTCC
Found at i:8666796 original size:30 final size:30
Alignment explanation
Indices: 8666760--8666821 Score: 115
Period size: 30 Copynumber: 2.1 Consensus size: 30
8666750 ACTTATTTTA
8666760 TTATTAATTTTGTTATTATTTTAAAGACAT
1 TTATTAATTTTGTTATTATTTTAAAGACAT
*
8666790 TTATTAATTTTGTTATTATTTTAGAGACAT
1 TTATTAATTTTGTTATTATTTTAAAGACAT
8666820 TT
1 TT
8666822 GCTTGTTAAG
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 31 1.00
ACGTcount: A:0.31, C:0.03, G:0.08, T:0.58
Consensus pattern (30 bp):
TTATTAATTTTGTTATTATTTTAAAGACAT
Found at i:8666891 original size:84 final size:83
Alignment explanation
Indices: 8666797--8666966 Score: 286
Period size: 84 Copynumber: 2.0 Consensus size: 83
8666787 CATTTATTAA
8666797 TTTTGTTATTATTTTAGAGACATTTGCTTGTTAAGTTGCATCTATCTTAGTGTTATTTAAGTATA
1 TTTTGTTATTATTTTAGAGACATTTGCTTGTTAAGTTGCATCTATCTTAGTGTTATTTAAGTATA
8666862 CATATTTTTTAAAATTTAT
66 CATATTTTTT-AAATTTAT
* * * * *
8666881 TTTTGTTATTATTTTAGAGGCATTTGTTTGTTAAGTTGTATTTATCTTAGTGTTATTTAAGTTTA
1 TTTTGTTATTATTTTAGAGACATTTGCTTGTTAAGTTGCATCTATCTTAGTGTTATTTAAGTATA
8666946 CATATTTTTTAAATTTAT
66 CATATTTTTTAAATTTAT
8666964 TTT
1 TTT
8666967 CAATTTGTTG
Statistics
Matches: 81, Mismatches: 5, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
83 11 0.14
84 70 0.86
ACGTcount: A:0.25, C:0.05, G:0.12, T:0.57
Consensus pattern (83 bp):
TTTTGTTATTATTTTAGAGACATTTGCTTGTTAAGTTGCATCTATCTTAGTGTTATTTAAGTATA
CATATTTTTTAAATTTAT
Found at i:8675803 original size:31 final size:32
Alignment explanation
Indices: 8675741--8675803 Score: 110
Period size: 32 Copynumber: 2.0 Consensus size: 32
8675731 CAAATTACAG
*
8675741 GAGTAATTGAATCCTAATAAAAATTCTTTAAA
1 GAGTAATTGAATCCTAATAAAAACTCTTTAAA
8675773 GAGTAATTGAATCCTAAT-AAAACTCTTTAAA
1 GAGTAATTGAATCCTAATAAAAACTCTTTAAA
8675804 ATTATCTAAG
Statistics
Matches: 30, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
31 12 0.40
32 18 0.60
ACGTcount: A:0.46, C:0.11, G:0.10, T:0.33
Consensus pattern (32 bp):
GAGTAATTGAATCCTAATAAAAACTCTTTAAA
Found at i:8680957 original size:12 final size:13
Alignment explanation
Indices: 8680927--8680969 Score: 54
Period size: 12 Copynumber: 3.5 Consensus size: 13
8680917 TTTTTTTGCG
8680927 CTTTTTGCTTCTT
1 CTTTTTGCTTCTT
*
8680940 CTTTTT-CTTTTT
1 CTTTTTGCTTCTT
*
8680952 CTTTTTGC-TATT
1 CTTTTTGCTTCTT
8680964 CTTTTT
1 CTTTTT
8680970 AAAGAATAAG
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
12 20 0.74
13 7 0.26
ACGTcount: A:0.02, C:0.19, G:0.05, T:0.74
Consensus pattern (13 bp):
CTTTTTGCTTCTT
Found at i:8681554 original size:31 final size:32
Alignment explanation
Indices: 8681495--8681559 Score: 123
Period size: 32 Copynumber: 2.1 Consensus size: 32
8681485 GGCAAATTAC
8681495 AAGAGTAATTGAATCCTAATAAAAACTCTTTA
1 AAGAGTAATTGAATCCTAATAAAAACTCTTTA
8681527 AAGAGTAATTGAATCCTAAT-AAAACTCTTTA
1 AAGAGTAATTGAATCCTAATAAAAACTCTTTA
8681558 AA
1 AA
8681560 ATCATCTAAG
Statistics
Matches: 33, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
31 13 0.39
32 20 0.61
ACGTcount: A:0.48, C:0.12, G:0.09, T:0.31
Consensus pattern (32 bp):
AAGAGTAATTGAATCCTAATAAAAACTCTTTA
Found at i:8683377 original size:164 final size:165
Alignment explanation
Indices: 8683184--8683513 Score: 653
Period size: 164 Copynumber: 2.0 Consensus size: 165
8683174 TCCTTTCCAT
8683184 AGCCATTTAGCCCTTTTAACTAATAGAATTCAATTTTTACATCTTTTGTGATTAGTCCTTTTTAC
1 AGCCATTTAGCCCTTTTAACTAATAGAATTCAATTTTTACATCTTTTGTGATTAGTCCTTTTTAC
8683249 TTAATTAACTATTTAAACTTTAAAATTTCTTAATAATCCTGTAGAAATTAAATAAATATTAAAAT
66 TTAATTAACTATTTAAACTTTAAAATTTCTTAATAATCCTGTAGAAATTAAATAAATATTAAAAT
8683314 AATAAATCACTTATCAAAATTGTGGTCTTGAAACC
131 AATAAATCACTTATCAAAATTGTGGTCTTGAAACC
8683349 AGCCATTTAG-CCTTTTAACTAATAGAATTCAATTTTTACATCTTTTGTGATTAGTCCTTTTTAC
1 AGCCATTTAGCCCTTTTAACTAATAGAATTCAATTTTTACATCTTTTGTGATTAGTCCTTTTTAC
8683413 TTAATTAACTATTTAAACTTTAAAATTTCTTAATAATCCTGTAGAAATTAAATAAATATTAAAAT
66 TTAATTAACTATTTAAACTTTAAAATTTCTTAATAATCCTGTAGAAATTAAATAAATATTAAAAT
8683478 AATAAATCACTTATCAAAATTGTGGTCTTGAAACC
131 AATAAATCACTTATCAAAATTGTGGTCTTGAAACC
8683513 A
1 A
8683514 CTATTTCTGA
Statistics
Matches: 165, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
164 155 0.94
165 10 0.06
ACGTcount: A:0.38, C:0.14, G:0.07, T:0.41
Consensus pattern (165 bp):
AGCCATTTAGCCCTTTTAACTAATAGAATTCAATTTTTACATCTTTTGTGATTAGTCCTTTTTAC
TTAATTAACTATTTAAACTTTAAAATTTCTTAATAATCCTGTAGAAATTAAATAAATATTAAAAT
AATAAATCACTTATCAAAATTGTGGTCTTGAAACC
Found at i:8690481 original size:28 final size:27
Alignment explanation
Indices: 8690447--8690500 Score: 74
Period size: 27 Copynumber: 2.0 Consensus size: 27
8690437 TTATGTTATA
*
8690447 AAATAA-TACTATACTAATTATATATGTT
1 AAATAATTA-TATA-TAAATATATATGTT
8690475 AAATAATTATATATAAATATATATGT
1 AAATAATTATATATAAATATATATGT
8690501 ATCTTAAATC
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
27 12 0.50
28 10 0.42
29 2 0.08
ACGTcount: A:0.50, C:0.04, G:0.04, T:0.43
Consensus pattern (27 bp):
AAATAATTATATATAAATATATATGTT
Found at i:8692067 original size:24 final size:24
Alignment explanation
Indices: 8692039--8692087 Score: 98
Period size: 24 Copynumber: 2.0 Consensus size: 24
8692029 ATTCTTGTGA
8692039 AAAATTGATAAATGTTGGCTGTAT
1 AAAATTGATAAATGTTGGCTGTAT
8692063 AAAATTGATAAATGTTGGCTGTAT
1 AAAATTGATAAATGTTGGCTGTAT
8692087 A
1 A
8692088 GGGATTATAT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.39, C:0.04, G:0.20, T:0.37
Consensus pattern (24 bp):
AAAATTGATAAATGTTGGCTGTAT
Found at i:8694566 original size:40 final size:40
Alignment explanation
Indices: 8694508--8694623 Score: 139
Period size: 40 Copynumber: 3.0 Consensus size: 40
8694498 CGTTTGGATA
*
8694508 AAAAACGCCACTAAAAATCAATCATTAGCGGCGCTTTTAG
1 AAAAACGCCGCTAAAAATCAATCATTAGCGGCGCTTTTAG
* **
8694548 AAAAACGCCGCTACAAATCAAGT-ATTAGCGGCGCTTTTCT
1 AAAAACGCCGCTAAAAATCAA-TCATTAGCGGCGCTTTTAG
* * *
8694588 AAAAACGCTGCTAAAAAT-AACCATTAGTGGCG-TTTT
1 AAAAACGCCGCTAAAAATCAATCATTAGCGGCGCTTTT
8694624 CCAGAAAGCG
Statistics
Matches: 66, Mismatches: 8, Indels: 6
0.82 0.10 0.08
Matches are distributed among these distances:
38 4 0.06
39 11 0.17
40 50 0.76
41 1 0.02
ACGTcount: A:0.37, C:0.22, G:0.16, T:0.25
Consensus pattern (40 bp):
AAAAACGCCGCTAAAAATCAATCATTAGCGGCGCTTTTAG
Found at i:8694738 original size:41 final size:41
Alignment explanation
Indices: 8694681--8694872 Score: 248
Period size: 41 Copynumber: 4.7 Consensus size: 41
8694671 GTTTTTGGGA
* *
8694681 CTTTAGCGGCGTTTTTGAATAAGTGCCGCTAATGCTCAGGG-
1 CTTTAGCGGCGTTTTTGAAGAAGCGCCGCTAATGCT-AGGGT
* *
8694722 CTTTAGCGGCGTTTTTGAATAAGCGCCGCT-ATGCTTGGGT
1 CTTTAGCGGCGTTTTTGAAGAAGCGCCGCTAATGCTAGGGT
* * *
8694762 CTTTAGTGGTGTTTTTGAAGAAGCGCCGCTAATGCTTGGGT
1 CTTTAGCGGCGTTTTTGAAGAAGCGCCGCTAATGCTAGGGT
* *
8694803 CTTTAGCGGCGTTTTTGAGGAAGCGCCACTAATGCTCAGGG-
1 CTTTAGCGGCGTTTTTGAAGAAGCGCCGCTAATGCT-AGGGT
8694844 CTTTAGCGGCGTTTTTGGAA-AAGCGCCGC
1 CTTTAGCGGCGTTTTT-GAAGAAGCGCCGC
8694873 AAAAAATATT
Statistics
Matches: 135, Mismatches: 12, Indels: 8
0.87 0.08 0.05
Matches are distributed among these distances:
39 3 0.02
40 32 0.24
41 95 0.70
42 5 0.04
ACGTcount: A:0.18, C:0.20, G:0.31, T:0.32
Consensus pattern (41 bp):
CTTTAGCGGCGTTTTTGAAGAAGCGCCGCTAATGCTAGGGT
Found at i:8694810 original size:81 final size:80
Alignment explanation
Indices: 8694675--8694872 Score: 247
Period size: 81 Copynumber: 2.4 Consensus size: 80
8694665 TTGTTAGTTT
*
8694675 TTGGGACTTTAGCGGCGTTTTTGAATAAGTGCCGCTAATGCTCAGGGCTTTAGCGGCGTTTTTGA
1 TTGGG-CTTTAGCGGCGTTTTTGAA-AAGCGCCGCTAATGCTCAGGGCTTTAGCGGCGTTTTTGA
* *
8694740 ATAAGCGCCGCT-ATGC
64 AGAAGCGCCACTAATGC
* * *
8694756 TTGGGTCTTTAGTGGTGTTTTTGAAGAAGCGCCGCTAATGCT-TGGGTCTTTAGCGGCGTTTTTG
1 TTGGG-CTTTAGCGGCGTTTTTGAA-AAGCGCCGCTAATGCTCAGGG-CTTTAGCGGCGTTTTTG
*
8694820 AGGAAGCGCCACTAATGC
63 AAGAAGCGCCACTAATGC
*
8694838 TCAGGGCTTTAGCGGCGTTTTTGGAAAAGCGCCGC
1 T-TGGGCTTTAGCGGCGTTTTT-GAAAAGCGCCGC
8694873 AAAAAATATT
Statistics
Matches: 101, Mismatches: 12, Indels: 7
0.84 0.10 0.06
Matches are distributed among these distances:
80 3 0.03
81 64 0.63
82 28 0.28
83 6 0.06
ACGTcount: A:0.18, C:0.19, G:0.31, T:0.32
Consensus pattern (80 bp):
TTGGGCTTTAGCGGCGTTTTTGAAAAGCGCCGCTAATGCTCAGGGCTTTAGCGGCGTTTTTGAAG
AAGCGCCACTAATGC
Found at i:8700400 original size:43 final size:43
Alignment explanation
Indices: 8700348--8700475 Score: 202
Period size: 43 Copynumber: 3.0 Consensus size: 43
8700338 GTTTGTTCTT
* * * *
8700348 TAGCGGCGTTTGTGGGAAAAACGCCGTTAAAGCTCGTGGTCTC
1 TAGCGGCGTTTGTGGGAAAAGCGCCGCTATAGATCGTGGTCTC
*
8700391 TAGCGGCGTTTGTGGGAAAAGCGCCGCTATAGATCGTGGTCTT
1 TAGCGGCGTTTGTGGGAAAAGCGCCGCTATAGATCGTGGTCTC
*
8700434 TAGCAGCGTTTGTGGGAAAAGCGCCGCTATAGATCGTGGTCT
1 TAGCGGCGTTTGTGGGAAAAGCGCCGCTATAGATCGTGGTCT
8700476 GTGGAAAACC
Statistics
Matches: 79, Mismatches: 6, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
43 79 1.00
ACGTcount: A:0.20, C:0.20, G:0.34, T:0.27
Consensus pattern (43 bp):
TAGCGGCGTTTGTGGGAAAAGCGCCGCTATAGATCGTGGTCTC
Found at i:8700482 original size:30 final size:30
Alignment explanation
Indices: 8700448--8700505 Score: 107
Period size: 30 Copynumber: 1.9 Consensus size: 30
8700438 AGCGTTTGTG
*
8700448 GGAAAAGCGCCGCTATAGATCGTGGTCTGT
1 GGAAAACCGCCGCTATAGATCGTGGTCTGT
8700478 GGAAAACCGCCGCTATAGATCGTGGTCT
1 GGAAAACCGCCGCTATAGATCGTGGTCT
8700506 TTAGCGGCGT
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.24, C:0.22, G:0.31, T:0.22
Consensus pattern (30 bp):
GGAAAACCGCCGCTATAGATCGTGGTCTGT
Found at i:8700524 original size:73 final size:73
Alignment explanation
Indices: 8700405--8700548 Score: 252
Period size: 73 Copynumber: 2.0 Consensus size: 73
8700395 GGCGTTTGTG
* *
8700405 GGAAAAGCGCCGCTATAGATCGTGGTCTTTAGCAGCGTTTGTGGGAAAAGCGCCGCTATAGATCG
1 GGAAAACCGCCGCTATAGATCGTGGTCTTTAGCAGCGTTTGTGGGAAAAGCGCCGCTAAAGATCG
8700470 TGGTCTGT
66 TGGTCTGT
* *
8700478 GGAAAACCGCCGCTATAGATCGTGGTCTTTAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGGTCG
1 GGAAAACCGCCGCTATAGATCGTGGTCTTTAGCAGCGTTTGTGGGAAAAGCGCCGCTAAAGATCG
8700543 TGGTCT
66 TGGTCT
8700549 TTAGCGGCGT
Statistics
Matches: 67, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
73 67 1.00
ACGTcount: A:0.22, C:0.20, G:0.33, T:0.25
Consensus pattern (73 bp):
GGAAAACCGCCGCTATAGATCGTGGTCTTTAGCAGCGTTTGTGGGAAAAGCGCCGCTAAAGATCG
TGGTCTGT
Found at i:8700535 original size:43 final size:43
Alignment explanation
Indices: 8700478--8700581 Score: 172
Period size: 43 Copynumber: 2.4 Consensus size: 43
8700468 CGTGGTCTGT
* *
8700478 GGAAAACCGCCGCTATAGATCGTGGTCTTTAGCGGCGTTTGTG
1 GGAAAAGCGCCGCTAAAGATCGTGGTCTTTAGCGGCGTTTGTG
*
8700521 GGAAAAGCGCCGCTAAAGGTCGTGGTCTTTAGCGGCGTTTGTG
1 GGAAAAGCGCCGCTAAAGATCGTGGTCTTTAGCGGCGTTTGTG
*
8700564 GAAAAAGCGCCGCTAAAG
1 GGAAAAGCGCCGCTAAAG
8700582 TTAGCGACGC
Statistics
Matches: 57, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
43 57 1.00
ACGTcount: A:0.23, C:0.20, G:0.34, T:0.23
Consensus pattern (43 bp):
GGAAAAGCGCCGCTAAAGATCGTGGTCTTTAGCGGCGTTTGTG
Found at i:8700570 original size:116 final size:116
Alignment explanation
Indices: 8700362--8700578 Score: 353
Period size: 116 Copynumber: 1.9 Consensus size: 116
8700352 GGCGTTTGTG
* * *
8700362 GGAAAAACGCCGTTAAAGCTCGTGGTCTCTAGCGGCGTTTGTGGGAAAAGCGCCGCTATAGATCG
1 GGAAAAACGCCGCTAAAGATCGTGGTCTCTAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGATCG
*
8700427 TGGTCTTTAGCAGCGTTTGTGGGAAAAGCGCCGCTATAGATCGTGGTCTGT
66 TGGTCTTTAGCAGCGTTTGTGGAAAAAGCGCCGCTATAGATCGTGGTCTGT
* * * *
8700478 GGAAAACCGCCGCTATAGATCGTGGTCTTTAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGGTCG
1 GGAAAAACGCCGCTAAAGATCGTGGTCTCTAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGATCG
*
8700543 TGGTCTTTAGCGGCGTTTGTGGAAAAAGCGCCGCTA
66 TGGTCTTTAGCAGCGTTTGTGGAAAAAGCGCCGCTA
8700579 AAGTTAGCGA
Statistics
Matches: 92, Mismatches: 9, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
116 92 1.00
ACGTcount: A:0.22, C:0.20, G:0.33, T:0.25
Consensus pattern (116 bp):
GGAAAAACGCCGCTAAAGATCGTGGTCTCTAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGATCG
TGGTCTTTAGCAGCGTTTGTGGAAAAAGCGCCGCTATAGATCGTGGTCTGT
Found at i:8704159 original size:42 final size:43
Alignment explanation
Indices: 8704071--8704172 Score: 134
Period size: 42 Copynumber: 2.4 Consensus size: 43
8704061 GTGTCGCTAA
** *
8704071 CTTTAGCGGCGTTTTTTGAAATAAACGCTGCTAAAGATCGTGGT
1 CTTTAGCGGCG-TTTTTGAAATAAACGCCACTAAAGATCATGGT
* *
8704115 CTTTAGCGGCGTTTTTGGAA-AAGCGCCACTAAAGATCATGGT
1 CTTTAGCGGCGTTTTTGAAATAAACGCCACTAAAGATCATGGT
*
8704157 CTTTAGCGGCGCTTTT
1 CTTTAGCGGCGTTTTT
8704173 CCCACAAACG
Statistics
Matches: 52, Mismatches: 6, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
42 33 0.63
43 8 0.15
44 11 0.21
ACGTcount: A:0.23, C:0.19, G:0.25, T:0.33
Consensus pattern (43 bp):
CTTTAGCGGCGTTTTTGAAATAAACGCCACTAAAGATCATGGT
Found at i:8704208 original size:43 final size:43
Alignment explanation
Indices: 8704161--8704355 Score: 300
Period size: 43 Copynumber: 4.5 Consensus size: 43
8704151 CATGGTCTTT
* * *
8704161 AGCGGCGCTTTTCCCACAAACGCTGCTAAAGACCACGATCTTC
1 AGCGGCGCTTTCCCCACAAACGCCGCTAAAGACCACGACCTTC
* *
8704204 AGCGGCGCTTTTCCCACAAACGTCGCTAAAGACCACGACCTTC
1 AGCGGCGCTTTCCCCACAAACGCCGCTAAAGACCACGACCTTC
*
8704247 AGCGGCGCTTTCCCCACAAGCGCCGCTAAAGACCACGACCTTC
1 AGCGGCGCTTTCCCCACAAACGCCGCTAAAGACCACGACCTTC
* *
8704290 AGCGGCGCTTTCCCCACAAGCGCCGCTAAAGACCACTACCTTC
1 AGCGGCGCTTTCCCCACAAACGCCGCTAAAGACCACGACCTTC
* *
8704333 AGCGGCACTTCCCCCACAAACGC
1 AGCGGCGCTTTCCCCACAAACGC
8704356 GACCACTACC
Statistics
Matches: 142, Mismatches: 10, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
43 142 1.00
ACGTcount: A:0.25, C:0.40, G:0.19, T:0.16
Consensus pattern (43 bp):
AGCGGCGCTTTCCCCACAAACGCCGCTAAAGACCACGACCTTC
Found at i:8704432 original size:42 final size:41
Alignment explanation
Indices: 8704363--8704444 Score: 101
Period size: 42 Copynumber: 2.0 Consensus size: 41
8704353 CGCGACCACT
* * ** * *
8704363 ACCTTTAGCGGCGCTTTTTTCACAAACGCCGCTAAAGAACAA
1 ACCTTTAGCGGCGATTCTAGCAAAAACGCCACTAAA-AACAA
8704405 ACCTTTAGCGGCGATTCTAGCAAAAACGCCACTAAAAACA
1 ACCTTTAGCGGCGATTCTAGCAAAAACGCCACTAAAAACA
8704445 TAACNNNNNN
Statistics
Matches: 34, Mismatches: 6, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
41 4 0.12
42 30 0.88
ACGTcount: A:0.35, C:0.28, G:0.16, T:0.21
Consensus pattern (41 bp):
ACCTTTAGCGGCGATTCTAGCAAAAACGCCACTAAAAACAA
Found at i:8710324 original size:24 final size:25
Alignment explanation
Indices: 8710287--8710340 Score: 74
Period size: 24 Copynumber: 2.2 Consensus size: 25
8710277 TCTTTTTGCA
*
8710287 TTCATTCCATTCATCTGCATTACAT
1 TTCATTCCATTCATCTGCATTAAAT
* *
8710312 TTCATTGCA-TCATTTGCATTAAAT
1 TTCATTCCATTCATCTGCATTAAAT
8710336 TTCAT
1 TTCAT
8710341 GAAAAAACCC
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
24 18 0.69
25 8 0.31
ACGTcount: A:0.26, C:0.22, G:0.06, T:0.46
Consensus pattern (25 bp):
TTCATTCCATTCATCTGCATTAAAT
Found at i:8713079 original size:9 final size:9
Alignment explanation
Indices: 8713050--8713106 Score: 91
Period size: 9 Copynumber: 6.6 Consensus size: 9
8713040 GGCAAAAACA
8713050 AAAAACAAT
1 AAAAACAAT
8713059 -AAAACAAT
1 AAAAACAAT
8713067 -AAAACAAT
1 AAAAACAAT
8713075 AAAAACAAT
1 AAAAACAAT
*
8713084 AAAAATAAT
1 AAAAACAAT
8713093 AAAAACAAT
1 AAAAACAAT
8713102 AAAAA
1 AAAAA
8713107 AAGCATAAAA
Statistics
Matches: 45, Mismatches: 2, Indels: 2
0.92 0.04 0.04
Matches are distributed among these distances:
8 16 0.36
9 29 0.64
ACGTcount: A:0.79, C:0.09, G:0.00, T:0.12
Consensus pattern (9 bp):
AAAAACAAT
Found at i:8714560 original size:100 final size:100
Alignment explanation
Indices: 8714379--8715277 Score: 1165
Period size: 100 Copynumber: 9.0 Consensus size: 100
8714369 CTGAGGTTAT
* * * * ** *
8714379 AATTTAAAAGATTGAAGCTGCAACAGCGAATCTTACTTCCCTAGAGGTGCAGTGGAATATATTGA
1 AATTTAAAAGATTGAAGCCGCAACGGCGAATCTTACTTCCCTGGCGGTGCAGTGGAGCAGATTGA
* *
8714444 AGCTACAACGGCGAATCTTGTTTCCCCAACATTGC
66 AGCTACAACGGCGAATCTTGCTTCCCCGACATTGC
* * * * * *
8714479 AATTTAAAATATTGAAACCGCAACAGCAAATCTTACTTCCCTAGCGGTGTAGTGGAGCAGATTGA
1 AATTTAAAAGATTGAAGCCGCAACGGCGAATCTTACTTCCCTGGCGGTGCAGTGGAGCAGATTGA
* * *
8714544 AGCTACGACGGTGAATCTTGCTTCCCTGACATTGC
66 AGCTACAACGGCGAATCTTGCTTCCCCGACATTGC
* * * * *
8714579 AATTTAAACGATTGAAGCCGCAATGGCGAATCTTACTTCTCTGGCGGTGCAGTGTAACAGATTGA
1 AATTTAAAAGATTGAAGCCGCAACGGCGAATCTTACTTCCCTGGCGGTGCAGTGGAGCAGATTGA
* * *
8714644 AGCTACAACAGCGAATCTT-ATTCCTCGACATTGC
66 AGCTACAACGGCGAATCTTGCTTCCCCGACATTGC
* * * * *
8714678 AATTAAAAATATTTAAGCCGCAATGGTGAATCTTACTTCCCTGGCGGTGCAGTGGAGCAGATTGA
1 AATTTAAAAGATTGAAGCCGCAACGGCGAATCTTACTTCCCTGGCGGTGCAGTGGAGCAGATTGA
* * *
8714743 AGCTACGACGGCGAATCTTGCTTCCTCGACATTGT
66 AGCTACAACGGCGAATCTTGCTTCCCCGACATTGC
* * * *
8714778 AATTTAAAATATTAAAGCCGCAACGGTGAATCTTACTTCTCTGGCGGTGCAGTGGAGCAGATTGA
1 AATTTAAAAGATTGAAGCCGCAACGGCGAATCTTACTTCCCTGGCGGTGCAGTGGAGCAGATTGA
* * * * *
8714843 AGCTACGATGGCGAATCTTACTTCCCCAACATTAC
66 AGCTACAACGGCGAATCTTGCTTCCCCGACATTGC
* ** * * ** *
8714878 AATTTAAAAGATTGAATCCGCAACATCGAATATTACTTCCTTGGCGGTGCAGTGGAATAGAATGA
1 AATTTAAAAGATTGAAGCCGCAACGGCGAATCTTACTTCCCTGGCGGTGCAGTGGAGCAGATTGA
* * *
8714943 AGCTACGACGGCGAATCTTGTTTCCTCGACATTGC
66 AGCTACAACGGCGAATCTTGCTTCCCCGACATTGC
* * *
8714978 AATTTAAAAGATTAAAGCCGCAACGGCGAATCTTACTTCCCTGGCAGTGCAGTGGAGCAGATTGG
1 AATTTAAAAGATTGAAGCCGCAACGGCGAATCTTACTTCCCTGGCGGTGCAGTGGAGCAGATTGA
** * *
8715043 AGCTACAACGATGAATCTTACTTCCCTGACATTGC
66 AGCTACAACGGCGAATCTTGCTTCCCCGACATTGC
* *
8715078 AATTTAAAAGATTGAAGCCGCAACGGCAAATCTTACTTCCCTGGCGGTGCAGTGGAACAGATTGA
1 AATTTAAAAGATTGAAGCCGCAACGGCGAATCTTACTTCCCTGGCGGTGCAGTGGAGCAGATTGA
8715143 AGCTACAACGGCGAATCTTG-TTCCCCGACATTGC
66 AGCTACAACGGCGAATCTTGCTTCCCCGACATTGC
* * *
8715177 AATTAAAAAGATTGAAGCCGCAACGGCGAATCTTACTTCCCTGGCAGTGTAGTGG-GACAGATTG
1 AATTTAAAAGATTGAAGCCGCAACGGCGAATCTTACTTCCCTGGCGGTGCAGTGGAG-CAGATTG
*
8715241 AAGCTACAACGGCGAATCGTGCTTCCCCGACATTGC
65 AAGCTACAACGGCGAATCTTGCTTCCCCGACATTGC
8715277 A
1 A
8715278 GTTAATTAGA
Statistics
Matches: 692, Mismatches: 104, Indels: 6
0.86 0.13 0.01
Matches are distributed among these distances:
99 177 0.26
100 515 0.74
ACGTcount: A:0.30, C:0.22, G:0.22, T:0.26
Consensus pattern (100 bp):
AATTTAAAAGATTGAAGCCGCAACGGCGAATCTTACTTCCCTGGCGGTGCAGTGGAGCAGATTGA
AGCTACAACGGCGAATCTTGCTTCCCCGACATTGC
Found at i:8715294 original size:50 final size:49
Alignment explanation
Indices: 8714382--8715282 Score: 343
Period size: 50 Copynumber: 18.1 Consensus size: 49
8714372 AGGTTATAAT
* * * * **
8714382 TTAAAAGATTGAAGCTGCAACAGCGAATCTTACTTCCCTAGA-GGTGCAG
1 TTAAAAGATTGAAGCTACAACGGCGAATCTTGCTTCCC-CGACATTGCAG
* * * * * *
8714431 TGGAATATATTGAAGCTACAACGGCGAATCTTGTTTCCCCAACATTGCAAT
1 T-TAAAAGATTGAAGCTACAACGGCGAATCTTGCTTCCCCGACATTGC-AG
* * ** * * * * ** *
8714482 TTAAAATATTGAAACCGCAACAGCAAATCTTACTT-CCCTAGCGGTGTAG
1 TTAAAAGATTGAAGCTACAACGGCGAATCTTGCTTCCCCGA-CATTGCAG
* ** * * * *
8714531 TGGAGCAGATTGAAGCTACGACGGTGAATCTTGCTTCCCTGACATTGCAAT
1 T-TAAAAGATTGAAGCTACAACGGCGAATCTTGCTTCCCCGACATTGC-AG
* ** * * * * * **
8714582 TTAAACGATTGAAGCCGCAATGGCGAATCTTACTTCTCTGGCGGTGCAG
1 TTAAAAGATTGAAGCTACAACGGCGAATCTTGCTTCCCCGACATTGCAG
* * * * *
8714631 TGTAACAGATTGAAGCTACAACAGCGAATCTT-ATTCCTCGACATTGCAA
1 T-TAAAAGATTGAAGCTACAACGGCGAATCTTGCTTCCCCGACATTGCAG
* * ** * * * * * **
8714680 TTAAAAATATTTAAGCCGCAATGGTGAATCTTACTTCCCTGGCGGTGCAG
1 TT-AAAAGATTGAAGCTACAACGGCGAATCTTGCTTCCCCGACATTGCAG
* ** * * * *
8714730 TGGAGCAGATTGAAGCTACGACGGCGAATCTTGCTTCCTCGACATTGTAAT
1 T-TAAAAGATTGAAGCTACAACGGCGAATCTTGCTTCCCCGACATTG-CAG
* * ** * * * * * **
8714781 TTAAAATATTAAAGCCGCAACGGTGAATCTTACTTCTCTGGCGGTGCAG
1 TTAAAAGATTGAAGCTACAACGGCGAATCTTGCTTCCCCGACATTGCAG
* ** * * * * * *
8714830 TGGAGCAGATTGAAGCTACGATGGCGAATCTTACTTCCCCAACATTACAAT
1 T-TAAAAGATTGAAGCTACAACGGCGAATCTTGCTTCCCCGACATTGC-AG
* ** ** * * ** * **
8714881 TTAAAAGATTGAATCCGCAACATCGAATATTACTTCCTTGGCGGTGCAG
1 TTAAAAGATTGAAGCTACAACGGCGAATCTTGCTTCCCCGACATTGCAG
* * * * * * *
8714930 TGGAATAGAATGAAGCTACGACGGCGAATCTTGTTTCCTCGACATTGCAAT
1 T-TAAAAGATTGAAGCTACAACGGCGAATCTTGCTTCCCCGACATTGC-AG
* ** * * * *
8714981 TTAAAAGATTAAAGCCGCAACGGCGAATCTTACTTCCCTGGCAGTGCAG
1 TTAAAAGATTGAAGCTACAACGGCGAATCTTGCTTCCCCGACATTGCAG
* ** * ** * * *
8715030 TGGAGCAGATTGGAGCTACAACGATGAATCTTACTTCCCTGACATTGCAAT
1 T-TAAAAGATTGAAGCTACAACGGCGAATCTTGCTTCCCCGACATTGC-AG
** * * * * **
8715081 TTAAAAGATTGAAGCCGCAACGGCAAATCTTACTTCCCTGGCGGTGCAG
1 TTAAAAGATTGAAGCTACAACGGCGAATCTTGCTTCCCCGACATTGCAG
* * *
8715130 TGGAACAGATTGAAGCTACAACGGCGAATCTTG-TTCCCCGACATTGCAA
1 T-TAAAAGATTGAAGCTACAACGGCGAATCTTGCTTCCCCGACATTGCAG
** * * * * *
8715179 TTAAAAAGATTGAAGCCGCAACGGCGAATCTTACTTCCCTGGCAGTGTAG
1 TT-AAAAGATTGAAGCTACAACGGCGAATCTTGCTTCCCCGACATTGCAG
** * *
8715229 TGGGACAGATTGAAGCTACAACGGCGAATCGTGCTTCCCCGACATTGCAG
1 T-TAAAAGATTGAAGCTACAACGGCGAATCTTGCTTCCCCGACATTGCAG
8715279 TTAA
1 TTAA
8715283 TTAGACAGAA
Statistics
Matches: 579, Mismatches: 251, Indels: 44
0.66 0.29 0.05
Matches are distributed among these distances:
48 1 0.00
49 88 0.15
50 475 0.82
51 15 0.03
ACGTcount: A:0.30, C:0.22, G:0.22, T:0.26
Consensus pattern (49 bp):
TTAAAAGATTGAAGCTACAACGGCGAATCTTGCTTCCCCGACATTGCAG
Found at i:8715478 original size:44 final size:43
Alignment explanation
Indices: 8715301--8715707 Score: 208
Period size: 44 Copynumber: 9.5 Consensus size: 43
8715291 AAGCCAATCC
* **
8715301 TATCTCCCTGAAATTGCAGTGGAGTGGATTAAAACCACAGATCT
1 TATCTCCCTGAAGTTGCAGTGGAGCAGA-TAAAACCACAGATCT
* * *** *
8715345 TATCTCTCTGAAGTTGCAGTAGAGCAGATCGCATC-CAG-TCT
1 TATCTCCCTGAAGTTGCAGTGGAGCAGATAAAACCACAGATCT
* ** *
8715386 TATCTCCCTGAAGTTGCAGTGAAGCAGA-AAGAAGAAGTCA-ATCC
1 TATCTCCCTGAAGTTGCAGTGGAGCAGATAA-AACCA--CAGATCT
* * *
8715430 TATCTCCCTAAAGTTACAGTGGAGCGGATTAAAACCACAGATCT
1 TATCTCCCTGAAGTTGCAGTGGAGCAGA-TAAAACCACAGATCT
* * * * *** *
8715474 TATCTCTCTGAAGTTGTAGTAGAACAGATTGCATC-CAG-TCT
1 TATCTCCCTGAAGTTGCAGTGGAGCAGATAAAACCACAGATCT
* * * *
8715515 TATCTCCCTGAAGTTGCAGTGGAGCAAACAGAAGAAGC-CA-ATCC
1 TATCTCCCTGAAGTTGCAGTGGAGC--AGATAA-AACCACAGATCT
* * * * *** *
8715559 TATCTCTCTGAAGTTGTAGTAGAGCAAATCGCATC-CAG-TCT
1 TATCTCCCTGAAGTTGCAGTGGAGCAGATAAAACCACAGATCT
* * * *
8715600 TATCTCCCTGAAGTTGTAGTGGAGCAGACAGAATA-AATCA-ATCC
1 TATCTCCCTGAAGTTGCAGTGGAGCAGATA-AA-ACCA-CAGATCT
* * * *
8715644 TATCTCCCTAAAATTGCAGTGGAGCGGATTAAAAACACAGATCT
1 TATCTCCCTGAAGTTGCAGTGGAGCAGA-TAAAACCACAGATCT
* *
8715688 TATCTCTCTAAAGTTGCAGT
1 TATCTCCCTGAAGTTGCAGT
8715708 AGATTAGATC
Statistics
Matches: 267, Mismatches: 75, Indels: 42
0.70 0.20 0.11
Matches are distributed among these distances:
41 84 0.31
42 8 0.03
43 14 0.05
44 155 0.58
45 4 0.01
46 2 0.01
ACGTcount: A:0.31, C:0.22, G:0.20, T:0.27
Consensus pattern (43 bp):
TATCTCCCTGAAGTTGCAGTGGAGCAGATAAAACCACAGATCT
Found at i:8715519 original size:129 final size:129
Alignment explanation
Indices: 8715289--8715573 Score: 457
Period size: 129 Copynumber: 2.2 Consensus size: 129
8715279 TTAATTAGAC
* *
8715289 AGAAGCCAATCCTATCTCCCTGAAA-TTGCAGTGGAGTGGATTAAAACCACAGATCTTATCTCTC
1 AGAAGCCAATCCTATCTCCCT-AAAGTTACAGTGGAGCGGATTAAAACCACAGATCTTATCTCTC
*
8715353 TGAAGTTGCAGTAGAGCAGATCGCATCCAGTCTTATCTCCCTGAAGTTGCAGTGAAGCAGAA-AG
65 TGAAGTTGCAGTAGAACAGATCGCATCCAGTCTTATCTCCCTGAAGTTGCAGTGAAGCA-AACAG
8715417 A
129 A
*
8715418 AGAAGTCAATCCTATCTCCCTAAAGTTACAGTGGAGCGGATTAAAACCACAGATCTTATCTCTCT
1 AGAAGCCAATCCTATCTCCCTAAAGTTACAGTGGAGCGGATTAAAACCACAGATCTTATCTCTCT
* * *
8715483 GAAGTTGTAGTAGAACAGATTGCATCCAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAAACAGA
66 GAAGTTGCAGTAGAACAGATCGCATCCAGTCTTATCTCCCTGAAGTTGCAGTGAAGCAAACAGA
* *
8715547 AGAAGCCAATCCTATCTCTCTGAAGTT
1 AGAAGCCAATCCTATCTCCCTAAAGTT
8715574 GTAGTAGAGC
Statistics
Matches: 144, Mismatches: 10, Indels: 4
0.91 0.06 0.03
Matches are distributed among these distances:
128 5 0.03
129 139 0.97
ACGTcount: A:0.31, C:0.22, G:0.20, T:0.26
Consensus pattern (129 bp):
AGAAGCCAATCCTATCTCCCTAAAGTTACAGTGGAGCGGATTAAAACCACAGATCTTATCTCTCT
GAAGTTGCAGTAGAACAGATCGCATCCAGTCTTATCTCCCTGAAGTTGCAGTGAAGCAAACAGA
Found at i:8715535 original size:85 final size:85
Alignment explanation
Indices: 8715474--8715649 Score: 271
Period size: 85 Copynumber: 2.1 Consensus size: 85
8715464 CCACAGATCT
* *
8715474 TATCTCTCTGAAGTTGTAGTAGAACAGATTGCATCCAGTCTTATCTCCCTGAAGTTGCAGTGGAG
1 TATCTCTCTGAAGTTGTAGTAGAACAAATCGCATCCAGTCTTATCTCCCTGAAGTTGCAGTGGAG
*
8715539 CAAACAGAAGAAGCCAATCC
66 CAAACAGAAGAACCCAATCC
* *
8715559 TATCTCTCTGAAGTTGTAGTAGAGCAAATCGCATCCAGTCTTATCTCCCTGAAGTTGTAGTGGAG
1 TATCTCTCTGAAGTTGTAGTAGAACAAATCGCATCCAGTCTTATCTCCCTGAAGTTGCAGTGGAG
* * **
8715624 CAGACAGAATAAATCAATCC
66 CAAACAGAAGAACCCAATCC
8715644 TATCTC
1 TATCTC
8715650 CCTAAAATTG
Statistics
Matches: 83, Mismatches: 8, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
85 83 1.00
ACGTcount: A:0.30, C:0.22, G:0.20, T:0.28
Consensus pattern (85 bp):
TATCTCTCTGAAGTTGTAGTAGAACAAATCGCATCCAGTCTTATCTCCCTGAAGTTGCAGTGGAG
CAAACAGAAGAACCCAATCC
Found at i:8715648 original size:129 final size:125
Alignment explanation
Indices: 8715342--8715751 Score: 340
Period size: 129 Copynumber: 3.2 Consensus size: 125
8715332 AAACCACAGA
* * * ** * *
8715342 TCTTATCTCTCTGAAGTTGCAGTAGAGCAG-ATCGCATCCAGTCTTATCTCCCTGAAGTTGCAGT
1 TCTTATCTCCCTGAAGTTGTAGTAGAACAGAAT-AAATCCAATCCTATCTCCCTGAAGTTGCAGT
* * * * * * * *** *
8715406 GAAGCAGAAAGAAGAAGTCAATCCTATCTCCCTAAAGTTACAGTGGAGCGGATTAAAACCACAG
65 GGAGCA-AAAGAAGAAGCCAATCCTATCTCTCTAAAGTTGCAGTAGAGC-AAATCGCATC-CAG
* * ** * *
8715470 ATCTTATCTCTCTGAAGTTGTAGTAGAACAGATTGCATCCAGTCTTATCTCCCTGAAGTTGCAGT
1 -TCTTATCTCCCTGAAGTTGTAGTAGAACAGAATAAATCCAATCCTATCTCCCTGAAGTTGCAGT
* *
8715535 GGAGCAAACAGAAGAAGCCAATCCTATCTCTCTGAAGTTGTAGTAGAGCAAATCGCATCCAG
65 GGAGCAAA-AGAAGAAGCCAATCCTATCTCTCTAAAGTTGCAGTAGAGCAAATCGCATCCAG
* *
8715597 TCTTATCTCCCTGAAGTTGTAGTGGAGCAGACAGAATAAAT-CAATCCTATCTCCCTAAAATTGC
1 TCTTATCTCCCTGAAGTTGTAGT--AG-A-ACAGAATAAATCCAATCCTATCTCCCTGAAGTTGC
** ** * * ** * *
8715661 AGTGGAGCGGATTAA-AAACACAGATCTTATCTCTCTAAAGTTGCAGTAGATTAGATCGCATCGA
62 AGTGGAGCAAAAGAAGAAGC-CA-ATCCTATCTCTCTAAAGTTGCAGTAGAGCAAATCGCATCCA
8715725 G
125 G
*
8715726 TCATATCTCCCTGAAGTTGTAGTAGA
1 TCTTATCTCCCTGAAGTTGTAGTAGA
8715752 GTGGATTAAA
Statistics
Matches: 236, Mismatches: 37, Indels: 19
0.81 0.13 0.07
Matches are distributed among these distances:
126 23 0.10
127 8 0.03
128 12 0.05
129 184 0.78
130 9 0.04
ACGTcount: A:0.31, C:0.21, G:0.20, T:0.27
Consensus pattern (125 bp):
TCTTATCTCCCTGAAGTTGTAGTAGAACAGAATAAATCCAATCCTATCTCCCTGAAGTTGCAGTG
GAGCAAAAGAAGAAGCCAATCCTATCTCTCTAAAGTTGCAGTAGAGCAAATCGCATCCAG
Found at i:8715733 original size:85 final size:85
Alignment explanation
Indices: 8715644--8715807 Score: 202
Period size: 85 Copynumber: 1.9 Consensus size: 85
8715634 AAATCAATCC
*
8715644 TATCTCCCTAAAATTGCAGTGGAGCGGATTAAAAACACAGATCTTATCTCTCTAAAGTTGCAGTA
1 TATCTCCCTAAAATTGCAGTAGAGCGGATTAAAAACACAGATCTTATCTCTCTAAAGTTGCAGTA
**
8715709 GATTAGATCGCATCGAGTCA
66 GAGCAGATCGCATCGAGTCA
* * * * ** ** * * *
8715729 TATCTCCCTGAAGTTGTAGTAGAGTGGATTAAAATGATGGATCTTATCTTTTTGAAGTTGCAGTA
1 TATCTCCCTAAAATTGCAGTAGAGCGGATTAAAAACACAGATCTTATCTCTCTAAAGTTGCAGTA
8715794 GAGCAGATCGCATC
66 GAGCAGATCGCATC
8715808 AGACCTTATT
Statistics
Matches: 65, Mismatches: 14, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
85 65 1.00
ACGTcount: A:0.30, C:0.17, G:0.21, T:0.31
Consensus pattern (85 bp):
TATCTCCCTAAAATTGCAGTAGAGCGGATTAAAAACACAGATCTTATCTCTCTAAAGTTGCAGTA
GAGCAGATCGCATCGAGTCA
Found at i:8715787 original size:214 final size:213
Alignment explanation
Indices: 8715301--8715839 Score: 681
Period size: 214 Copynumber: 2.5 Consensus size: 213
8715291 AAGCCAATCC
* *
8715301 TATCTCCCTGAAATTGCAGTGGAGTGGATTAAAACCACA-GATCTTATCTCTCTGAAGTTGCAGT
1 TATCTCCCTGAAGTTGCAGTGGAGTGGATTAAAA-GA-AGGATCTTATCTCTCTGAAGTTGCAGT
* *
8715365 AGAGCAGATCGCATCCAGTCTTATCTCCCTGAAGTTGCAGTGAAGCAGAAAGAAGAAGTCAATCC
64 AGAGCAGATCGCATCCAGTCTTATCTCCCTGAAGTTGTAGTGAAGCAGAAAGAAGAAATCAATCC
* * * *
8715430 TATCTCCCTAAAGTTACAGTGGAGCGGATTAAAACCACAGATCTTATCTCTCTGAAGTTGTAGTA
129 TATCTCCCTAAAATTACAGTGGAGCGGATTAAAAACACAGATCTTATCTCTCTAAAGTTGCAGTA
* *
8715495 GAACAGATTGCATCCAGTCT
194 GAACAGATCGCATCCAGTCA
** ** * * * *
8715515 TATCTCCCTGAAGTTGCAGTGGAG-CAAACAGAAGAAGCCAATCCTATCTCTCTGAAGTTGTAGT
1 TATCTCCCTGAAGTTGCAGTGGAGTGGATTAAAAGAAG--GATCTTATCTCTCTGAAGTTGCAGT
* * * *
8715579 AGAGCAAATCGCATCCAGTCTTATCTCCCTGAAGTTGTAGTGGAGCAGACAGAATAAATCAATCC
64 AGAGCAGATCGCATCCAGTCTTATCTCCCTGAAGTTGTAGTGAAGCAGAAAGAAGAAATCAATCC
*
8715644 TATCTCCCTAAAATTGCAGTGGAGCGGATTAAAAACACAGATCTTATCTCTCTAAAGTTGCAGTA
129 TATCTCCCTAAAATTACAGTGGAGCGGATTAAAAACACAGATCTTATCTCTCTAAAGTTGCAGTA
** *
8715709 GATTAGATCGCATCGAGTCA
194 GAACAGATCGCATCCAGTCA
* * * * *
8715729 TATCTCCCTGAAGTTGTAGTAGAGTGGATTAAAATGATGGATCTTATCTTTTTGAAGTTGCAGTA
1 TATCTCCCTGAAGTTGCAGTGGAGTGGATTAAAA-GAAGGATCTTATCTCTCTGAAGTTGCAGTA
* *
8715794 GAGCAGATCGCAT-CAGACCTTAT-TCCCTTAAAGTTGTAGTTGAAGC
65 GAGCAGATCGCATCCAG-TCTTATCTCCC-TGAAGTTGTAG-TGAAGC
8715840 TATTAATCCT
Statistics
Matches: 274, Mismatches: 43, Indels: 15
0.83 0.13 0.05
Matches are distributed among these distances:
211 1 0.00
212 1 0.00
213 11 0.04
214 249 0.91
215 9 0.03
216 3 0.01
ACGTcount: A:0.31, C:0.20, G:0.21, T:0.28
Consensus pattern (213 bp):
TATCTCCCTGAAGTTGCAGTGGAGTGGATTAAAAGAAGGATCTTATCTCTCTGAAGTTGCAGTAG
AGCAGATCGCATCCAGTCTTATCTCCCTGAAGTTGTAGTGAAGCAGAAAGAAGAAATCAATCCTA
TCTCCCTAAAATTACAGTGGAGCGGATTAAAAACACAGATCTTATCTCTCTAAAGTTGCAGTAGA
ACAGATCGCATCCAGTCA
Found at i:8722437 original size:30 final size:30
Alignment explanation
Indices: 8722402--8722470 Score: 88
Period size: 29 Copynumber: 2.4 Consensus size: 30
8722392 CACCAAAAAA
8722402 AGCCGATTTTTTTAAAAATTTACCGAAATG
1 AGCCGATTTTTTTAAAAATTTACCGAAATG
* * **
8722432 GGCCGA-CTTTTTAATTATTTACCGAAATG
1 AGCCGATTTTTTTAAAAATTTACCGAAATG
8722461 AGCC-ATTTTT
1 AGCCGATTTTT
8722471 CGCGAAATCG
Statistics
Matches: 32, Mismatches: 6, Indels: 3
0.78 0.15 0.07
Matches are distributed among these distances:
28 1 0.03
29 26 0.81
30 5 0.16
ACGTcount: A:0.30, C:0.16, G:0.14, T:0.39
Consensus pattern (30 bp):
AGCCGATTTTTTTAAAAATTTACCGAAATG
Found at i:8724233 original size:41 final size:41
Alignment explanation
Indices: 8724176--8724409 Score: 396
Period size: 41 Copynumber: 5.7 Consensus size: 41
8724166 AAATGTTTTT
* *
8724176 GCGGCGCTTTTCCAAAAACGCCGCTAAAGACTAGAGCATTA
1 GCGGCGCTTCTCCAAAAACGCCGCTAAAGACCAGAGCATTA
8724217 GCGGCGCTTCTCCAAAAACGCCGCTAAAGACCAGAGCATTA
1 GCGGCGCTTCTCCAAAAACGCCGCTAAAGACCAGAGCATTA
*
8724258 GCTGCGCTTCTCCAAAAACGCCGCTAAAGACCAGAGCATTA
1 GCGGCGCTTCTCCAAAAACGCCGCTAAAGACCAGAGCATTA
8724299 GCGGCGCTTCTCCAAAAACGCCGCTAAAGACCAGAGCATTA
1 GCGGCGCTTCTCCAAAAACGCCGCTAAAGACCAGAGCATTA
*
8724340 GCTGCGCTTCTCCAAAAACGCCGCTAAAGACCAGAGCATTA
1 GCGGCGCTTCTCCAAAAACGCCGCTAAAGACCAGAGCATTA
* * **
8724381 GCTGCGCTTTTATAAAAACGCCGCTAAAG
1 GCGGCGCTTCTCCAAAAACGCCGCTAAAG
8724410 CCCCGAAAGG
Statistics
Matches: 185, Mismatches: 8, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
41 185 1.00
ACGTcount: A:0.32, C:0.30, G:0.21, T:0.18
Consensus pattern (41 bp):
GCGGCGCTTCTCCAAAAACGCCGCTAAAGACCAGAGCATTA
Found at i:8729010 original size:473 final size:474
Alignment explanation
Indices: 8728124--8729067 Score: 1710
Period size: 473 Copynumber: 2.0 Consensus size: 474
8728114 TTTCGGCATA
* *
8728124 TATTCTCGTATCGAGAGTTTGATACGCTGTGTCCTAACGCATTGGATATGACATGTTGTTTTCTC
1 TATTCTCATATCGAGAGTTTGATACGCTGTGTCCTAACGCATTGGATATGACATATTGTTTTCTC
* *
8728189 GATATGAGGATTTCTTTAAAAAATAATAAAGGCAATATTTTGCATTTGGAAATTCGAGAAAGCAT
66 GATATGAGGATTTCTCTAAAAAATAATAAAGGCAATATTTTGCATTTGGAAATCCGAGAAAGCAT
*
8728254 GCCGTAACGTGTTGGGTTTCGATTTCTCGTTTGACCAAATAGCCAAGCATCCTCTCAAAACTTCA
131 GCCCTAACGTGTTGGGTTTCGATTTCTCGTTTGACCAAATAGCCAAGCATCCTCTCAAAACTTCA
* *
8728319 AAGTATGGGTTTTTGAAACCATAAGGTGATCTTGGGTTCGATGGTTTAAAGTATCATGTCTTAAC
196 AAGTATGGGTTTTTGAAACCATAAGATGATCTTGGGTTCGATGGTTTAAAGTATCATGTCCTAAC
8728384 GTGCTGGATGTAATATTTCTTCAGAACAAGAGAATCTTAAATTTCAATCCATGTTATTCGAGTTT
261 GTGCTGGATGTAATATTTCTTCAGAACAAGAGAATCTTAAATTTCAATCCATGTTATTCGAGTTT
* *
8728449 TTTTACTAGGATCGTATTTTTAAAAAACTCTTCAAAGTTCTCAATCTTCGGCACTAAGACATTAC
326 TTTTACTAGGATCGTATTTTTAAAAAACTCTTCAAAGTTCTCAATCTTCGACACTAAGACATTAA
8728514 TTAATCAACTAGGTACCAATTTTGGGCGTTACGAGGGTGCTAATCCTTCCTCGTGCGTAACCGAC
391 TTAATCAACTAGGTACCAATTTTGGGCGTTACGAGGGTGCTAATCCTTCCTCGTGCGTAACCGAC
8728579 TCCCGAACCTACTTTTTTG
456 TCCCGAACCTACTTTTTTG
* *
8728598 TATTCTCATATCGGGAGTTTGATACGTTGTGTCCTAACGCATTGGATATGACATATTGTTTTCTC
1 TATTCTCATATCGAGAGTTTGATACGCTGTGTCCTAACGCATTGGATATGACATATTGTTTTCTC
*
8728663 GATATGAGGATTTCTCT-AAAAATAATAAAGGCAATATTTTGCATTTGGAAATCCGAGAAAGCGT
66 GATATGAGGATTTCTCTAAAAAATAATAAAGGCAATATTTTGCATTTGGAAATCCGAGAAAGCAT
* *
8728727 GCCCTAACGTGTTGGGTTTCGGTTTCTCGTTTGACCAAATAGCCAAGCATCCTCTTAAAACTTCA
131 GCCCTAACGTGTTGGGTTTCGATTTCTCGTTTGACCAAATAGCCAAGCATCCTCTCAAAACTTCA
8728792 AAGTATGGGTTTTTGAAACCATAAGATGATCTTGGGTTCGATGGTTTAAAGTATCATGTCCTAAC
196 AAGTATGGGTTTTTGAAACCATAAGATGATCTTGGGTTCGATGGTTTAAAGTATCATGTCCTAAC
*
8728857 GTGCTGGATGTGATATTTCTTCAGAACAAGAGAATCTTAAATTTCAATCCATGTTATTCGAGTTT
261 GTGCTGGATGTAATATTTCTTCAGAACAAGAGAATCTTAAATTTCAATCCATGTTATTCGAGTTT
*
8728922 TTTTACTAGGATCGTATTTTTAAAAAACTCTTCAAAGTTCTCAATCTTCGACATTAAGACATTAA
326 TTTTACTAGGATCGTATTTTTAAAAAACTCTTCAAAGTTCTCAATCTTCGACACTAAGACATTAA
*
8728987 TTAATCAACTAGGTTCCAATTTTGGGCGTTACGAGGGTGCTAATCCTTCCTCGTGCGTAACCGAC
391 TTAATCAACTAGGTACCAATTTTGGGCGTTACGAGGGTGCTAATCCTTCCTCGTGCGTAACCGAC
* *
8729052 TCCCGAATCTGCTTTT
456 TCCCGAACCTACTTTT
8729068 CTGAATTTCA
Statistics
Matches: 451, Mismatches: 19, Indels: 1
0.96 0.04 0.00
Matches are distributed among these distances:
473 374 0.83
474 77 0.17
ACGTcount: A:0.28, C:0.18, G:0.19, T:0.35
Consensus pattern (474 bp):
TATTCTCATATCGAGAGTTTGATACGCTGTGTCCTAACGCATTGGATATGACATATTGTTTTCTC
GATATGAGGATTTCTCTAAAAAATAATAAAGGCAATATTTTGCATTTGGAAATCCGAGAAAGCAT
GCCCTAACGTGTTGGGTTTCGATTTCTCGTTTGACCAAATAGCCAAGCATCCTCTCAAAACTTCA
AAGTATGGGTTTTTGAAACCATAAGATGATCTTGGGTTCGATGGTTTAAAGTATCATGTCCTAAC
GTGCTGGATGTAATATTTCTTCAGAACAAGAGAATCTTAAATTTCAATCCATGTTATTCGAGTTT
TTTTACTAGGATCGTATTTTTAAAAAACTCTTCAAAGTTCTCAATCTTCGACACTAAGACATTAA
TTAATCAACTAGGTACCAATTTTGGGCGTTACGAGGGTGCTAATCCTTCCTCGTGCGTAACCGAC
TCCCGAACCTACTTTTTTG
Found at i:8732899 original size:14 final size:16
Alignment explanation
Indices: 8732864--8732902 Score: 60
Period size: 16 Copynumber: 2.4 Consensus size: 16
8732854 AAAATACACA
8732864 TATATATACATACTTT
1 TATATATACATACTTT
**
8732880 TATATATACATGTTTT
1 TATATATACATACTTT
8732896 TATATAT
1 TATATAT
8732903 TTCTATAATC
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
16 21 1.00
ACGTcount: A:0.36, C:0.08, G:0.03, T:0.54
Consensus pattern (16 bp):
TATATATACATACTTT
Found at i:8736528 original size:26 final size:26
Alignment explanation
Indices: 8736489--8736541 Score: 88
Period size: 26 Copynumber: 2.0 Consensus size: 26
8736479 AATGGTACGA
*
8736489 CATGAATGCACAATGTGACTATCATG
1 CATGAATGCACAATGTAACTATCATG
*
8736515 CATGAATGCGCAATGTAACTATCATG
1 CATGAATGCACAATGTAACTATCATG
8736541 C
1 C
8736542 GGGAGTTACG
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
26 25 1.00
ACGTcount: A:0.34, C:0.21, G:0.19, T:0.26
Consensus pattern (26 bp):
CATGAATGCACAATGTAACTATCATG
Found at i:8737939 original size:12 final size:12
Alignment explanation
Indices: 8737922--8737965 Score: 61
Period size: 13 Copynumber: 3.5 Consensus size: 12
8737912 TGTCCAAAAA
8737922 AAAAAAGAACAG
1 AAAAAAGAACAG
*
8737934 AAAAAAGAAAAGG
1 AAAAAAGAACA-G
8737947 AAAAAAGAACAG
1 AAAAAAGAACAG
8737959 AAGAAAA
1 AA-AAAA
8737966 ATAAAATAAA
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
12 13 0.46
13 15 0.54
ACGTcount: A:0.77, C:0.05, G:0.18, T:0.00
Consensus pattern (12 bp):
AAAAAAGAACAG
Found at i:8737944 original size:6 final size:6
Alignment explanation
Indices: 8737917--8738008 Score: 64
Period size: 6 Copynumber: 14.8 Consensus size: 6
8737907 AGGAATGTCC
* * * *
8737917 AAAAAA AAAAAG -AACAG AAAAAAG AAAAGG AAAAAAG AACAGAAG AAAAAT
1 AAAAAG AAAAAG AAAAAG -AAAAAG AAAAAG -AAAAAG AA-A-AAG AAAAAG
*
8737968 AAAATA- AAAGAAG AAAAAG -AAAAT AAAAAG AAAAAG AAAAA
1 AAAA-AG AAA-AAG AAAAAG AAAAAG AAAAAG AAAAAG AAAAA
8738009 TGAGAGGTCA
Statistics
Matches: 69, Mismatches: 8, Indels: 18
0.73 0.08 0.19
Matches are distributed among these distances:
5 8 0.12
6 40 0.58
7 16 0.23
8 5 0.07
ACGTcount: A:0.80, C:0.02, G:0.14, T:0.03
Consensus pattern (6 bp):
AAAAAG
Found at i:8737976 original size:25 final size:24
Alignment explanation
Indices: 8737948--8738009 Score: 64
Period size: 19 Copynumber: 2.8 Consensus size: 24
8737938 AAGAAAAGGA
8737948 AAAAAGAACAGAAGAAAAATAAAAT
1 AAAAAGAA-AGAAGAAAAATAAAAT
*
8737973 ----A-AAAGAAGAAAAAGAAAAT
1 AAAAAGAAAGAAGAAAAATAAAAT
8737992 AAAAAGAAA-AAGAAAAAT
1 AAAAAGAAAGAAGAAAAAT
8738010 GAGAGGTCAA
Statistics
Matches: 30, Mismatches: 2, Indels: 12
0.68 0.05 0.27
Matches are distributed among these distances:
19 15 0.50
20 2 0.07
21 1 0.03
23 9 0.30
24 3 0.10
ACGTcount: A:0.79, C:0.02, G:0.13, T:0.06
Consensus pattern (24 bp):
AAAAAGAAAGAAGAAAAATAAAAT
Found at i:8737979 original size:19 final size:18
Alignment explanation
Indices: 8737957--8738007 Score: 77
Period size: 19 Copynumber: 2.8 Consensus size: 18
8737947 AAAAAAGAAC
*
8737957 AGAAGAAAAATAAAATAAA
1 AGAAGAAAAAGAAAAT-AA
8737976 AGAAGAAAAAGAAAATAA
1 AGAAGAAAAAGAAAATAA
8737994 A-AAGAAAAAGAAAA
1 AGAAGAAAAAGAAAA
8738008 ATGAGAGGTC
Statistics
Matches: 31, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
17 13 0.42
18 3 0.10
19 15 0.48
ACGTcount: A:0.80, C:0.00, G:0.14, T:0.06
Consensus pattern (18 bp):
AGAAGAAAAAGAAAATAA
Found at i:8738462 original size:97 final size:99
Alignment explanation
Indices: 8738295--8738590 Score: 362
Period size: 97 Copynumber: 2.9 Consensus size: 99
8738285 CATTTCGTAT
* * * * * *
8738295 ATTAGCAAAATTTTCTATATTGATTAATTTATACATTTCGAGCTGTGCTCTCAATAAAGTTTCAT
1 ATTAGCAAAATTTGCTATCTTGATTAATTTATTCATTTCGAGCTTTGTTCTCAATAAAATTTCAT
8738360 TTTATCCATTGTGATAATCTTTTTCATCTTA-TC
66 TTTATCCATTGTGATAATCTTTTTCATCTTATTC
8738393 -TTAGCAAAATTTGCTATCTTGATTAATTTATTCATTTCGAGCTTTGTTCTCAATAAAATTTCAT
1 ATTAGCAAAATTTGCTATCTTGATTAATTTATTCATTTCGAGCTTTGTTCTCAATAAAATTTCAT
* * *
8738457 CTTATCCATTGTAATAATATTTTTCATCTTATTC
66 TTTATCCATTGTGATAATCTTTTTCATCTTATTC
* * * *
8738491 AGTTCGTATCTGAACAAAATTTGATATCTTGATTAATTTATTCATTTTGAGCCTTATTCTCAATA
1 A--T--TA---G--CAAAATTTGCTATCTTGATTAATTTATTCATTTCGAGCTTTGTTCTCAATA
* *
8738556 AAATTCCATTTTATCCATTTTGATAATCTTTTTCA
57 AAATTTCATTTTATCCATTGTGATAATCTTTTTCA
8738591 AGCATTTTTC
Statistics
Matches: 169, Mismatches: 18, Indels: 12
0.85 0.09 0.06
Matches are distributed among these distances:
97 86 0.51
98 2 0.01
101 1 0.01
103 2 0.01
106 1 0.01
108 77 0.46
ACGTcount: A:0.29, C:0.15, G:0.08, T:0.48
Consensus pattern (99 bp):
ATTAGCAAAATTTGCTATCTTGATTAATTTATTCATTTCGAGCTTTGTTCTCAATAAAATTTCAT
TTTATCCATTGTGATAATCTTTTTCATCTTATTC
Found at i:8739394 original size:46 final size:46
Alignment explanation
Indices: 8739304--8739970 Score: 974
Period size: 46 Copynumber: 14.5 Consensus size: 46
8739294 GACCAGAAGC
** * * *
8739304 AGCAGATCTCATCTTCTTGTATTTTGGCAGTGGAGGAGACCGAAGAT
1 AGCAGATCTTGTCTTCCTGTA-TTTGGCAGCGGAGGAGATCGAAGAT
* * * *
8739351 AGCAGATCTTATCTTCCAGTATTTGGTAGCAGAGGAGATCGAAGAT
1 AGCAGATCTTGTCTTCCTGTATTTGGCAGCGGAGGAGATCGAAGAT
* **
8739397 AGCGGATCTTGTCTTCCTGTATTTGGCAATGGAGGAGATCGAAGAT
1 AGCAGATCTTGTCTTCCTGTATTTGGCAGCGGAGGAGATCGAAGAT
** * *
8739443 AGTGGATCTTATCTTTCTGTATTTGGCAGCGGAGGAGATCGAAGAT
1 AGCAGATCTTGTCTTCCTGTATTTGGCAGCGGAGGAGATCGAAGAT
*
8739489 AGCAGATCTTGTCTTCCTGTATTTGGCAGCGGAGGAGATCGAAGAC
1 AGCAGATCTTGTCTTCCTGTATTTGGCAGCGGAGGAGATCGAAGAT
* * * *
8739535 AGCGGATCTTATCTTCTTGTATTTGGCAGCGGAAGAGATCGAAGAT
1 AGCAGATCTTGTCTTCCTGTATTTGGCAGCGGAGGAGATCGAAGAT
*
8739581 AGCGGATCTTGTCTTCCTGTATTTGGCAGCGGAGGAGATCGAAGAT
1 AGCAGATCTTGTCTTCCTGTATTTGGCAGCGGAGGAGATCGAAGAT
* * *
8739627 AGCGGATCTTGTCTTCCTGTATTTGGCAGCGAAGGAGATCGAAAAT
1 AGCAGATCTTGTCTTCCTGTATTTGGCAGCGGAGGAGATCGAAGAT
* * *
8739673 AGCGGATCTTCTCTTCATGTATTTGGCAGCGGAGGAGATCGAAGAT
1 AGCAGATCTTGTCTTCCTGTATTTGGCAGCGGAGGAGATCGAAGAT
* *
8739719 AGCGGATCTTGTCTTCCTGTATTTGGCAGCAGAGGAGATCGAAGAT
1 AGCAGATCTTGTCTTCCTGTATTTGGCAGCGGAGGAGATCGAAGAT
* * * *
8739765 AGAAGATCTTATCTTCCGGTATTTGGCAGCAGAGGAGATCGAAGAT
1 AGCAGATCTTGTCTTCCTGTATTTGGCAGCGGAGGAGATCGAAGAT
* *
8739811 AGCAGATCTTATCTTCCTATATTTGGCAGCGGAGGAGATCGAAGAT
1 AGCAGATCTTGTCTTCCTGTATTTGGCAGCGGAGGAGATCGAAGAT
8739857 AGCAGATCTTGTCTTCCTGTATTTGGCAGCGGAGGAGATCGAAGAT
1 AGCAGATCTTGTCTTCCTGTATTTGGCAGCGGAGGAGATCGAAGAT
* *
8739903 AGCAGTTCTTGTCTTCCTGTATTTGGTAGCGGAGGAGATCGAAGAT
1 AGCAGATCTTGTCTTCCTGTATTTGGCAGCGGAGGAGATCGAAGAT
*
8739949 AGCAGATATTGTCTTCCTGTAT
1 AGCAGATCTTGTCTTCCTGTAT
8739971 CTGACAGTGA
Statistics
Matches: 565, Mismatches: 55, Indels: 1
0.91 0.09 0.00
Matches are distributed among these distances:
46 547 0.97
47 18 0.03
ACGTcount: A:0.25, C:0.16, G:0.29, T:0.29
Consensus pattern (46 bp):
AGCAGATCTTGTCTTCCTGTATTTGGCAGCGGAGGAGATCGAAGAT
Found at i:8741697 original size:43 final size:43
Alignment explanation
Indices: 8741649--8741734 Score: 163
Period size: 43 Copynumber: 2.0 Consensus size: 43
8741639 TAATATACTT
*
8741649 ACATACTTACCTTTTTGTGATACTTATTTTTATAATTTATTTC
1 ACATACTTACCTTTTTGTGATACCTATTTTTATAATTTATTTC
8741692 ACATACTTACCTTTTTGTGATACCTATTTTTATAATTTATTTC
1 ACATACTTACCTTTTTGTGATACCTATTTTTATAATTTATTTC
8741735 GCATGTATAC
Statistics
Matches: 42, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
43 42 1.00
ACGTcount: A:0.26, C:0.15, G:0.05, T:0.55
Consensus pattern (43 bp):
ACATACTTACCTTTTTGTGATACCTATTTTTATAATTTATTTC
Found at i:8746155 original size:25 final size:25
Alignment explanation
Indices: 8746121--8746170 Score: 64
Period size: 25 Copynumber: 2.0 Consensus size: 25
8746111 TTGTCTAAAT
* * *
8746121 AAAGTTTGAAAGCTCAAAACTCAAA
1 AAAGTATGAAAACTCAAAACCCAAA
*
8746146 AAAGTATGAAAATTCAAAACCCAAA
1 AAAGTATGAAAACTCAAAACCCAAA
8746171 TCGATCAGAT
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
25 21 1.00
ACGTcount: A:0.56, C:0.16, G:0.10, T:0.18
Consensus pattern (25 bp):
AAAGTATGAAAACTCAAAACCCAAA
Found at i:8750504 original size:5 final size:5
Alignment explanation
Indices: 8750494--8750523 Score: 60
Period size: 5 Copynumber: 6.0 Consensus size: 5
8750484 TGATTTTACT
8750494 GAAAA GAAAA GAAAA GAAAA GAAAA GAAAA
1 GAAAA GAAAA GAAAA GAAAA GAAAA GAAAA
8750524 ACAGGGAAAG
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 25 1.00
ACGTcount: A:0.80, C:0.00, G:0.20, T:0.00
Consensus pattern (5 bp):
GAAAA
Found at i:8750611 original size:19 final size:20
Alignment explanation
Indices: 8750570--8750613 Score: 63
Period size: 20 Copynumber: 2.2 Consensus size: 20
8750560 AAATGGAGAA
*
8750570 AAGAAAAGAAACGTAAAGAG
1 AAGAAAACAAACGTAAAGAG
*
8750590 AAGAAAACAAACGT-ACGAG
1 AAGAAAACAAACGTAAAGAG
8750609 AAGAA
1 AAGAA
8750614 GCAGAAATCG
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
19 9 0.41
20 13 0.59
ACGTcount: A:0.64, C:0.09, G:0.23, T:0.05
Consensus pattern (20 bp):
AAGAAAACAAACGTAAAGAG
Found at i:8751903 original size:40 final size:40
Alignment explanation
Indices: 8751806--8751904 Score: 101
Period size: 40 Copynumber: 2.5 Consensus size: 40
8751796 ATTTTAAAAT
* * *
8751806 TTTTAAAATTTTTTAAAAAAGTATAATAATTATTTTTAAA
1 TTTTAAAATTTTTTAAAAAAGTATAAAAATTATGTATAAA
* ** ** *
8751846 ATTTAAAAACTACT-AAAAAGATATAAAAATTATGTATATA
1 TTTTAAAATTTTTTAAAAAAG-TATAAAAATTATGTATAAA
8751886 TTTTAAAATTTTTTAAAAA
1 TTTTAAAATTTTTTAAAAA
8751905 TTAATTAATT
Statistics
Matches: 43, Mismatches: 14, Indels: 3
0.72 0.23 0.05
Matches are distributed among these distances:
39 6 0.14
40 33 0.77
41 4 0.09
ACGTcount: A:0.52, C:0.02, G:0.03, T:0.43
Consensus pattern (40 bp):
TTTTAAAATTTTTTAAAAAAGTATAAAAATTATGTATAAA
Found at i:8752647 original size:2 final size:2
Alignment explanation
Indices: 8752601--8752630 Score: 51
Period size: 2 Copynumber: 15.0 Consensus size: 2
8752591 TTTTTTCCCT
*
8752601 TC TC TC TC TC TC TT TC TC TC TC TC TC TC TC
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
8752631 CCCCTTTCAC
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.00, C:0.47, G:0.00, T:0.53
Consensus pattern (2 bp):
TC
Found at i:8753032 original size:28 final size:28
Alignment explanation
Indices: 8752965--8753024 Score: 113
Period size: 28 Copynumber: 2.2 Consensus size: 28
8752955 CGAGACTAAA
8752965 CTAA-GACTAATTTATACGATAATGGGT
1 CTAATGACTAATTTATACGATAATGGGT
8752992 CTAATGACTAATTTATACGATAATGGGT
1 CTAATGACTAATTTATACGATAATGGGT
8753020 CTAAT
1 CTAAT
8753025 TGGTAATTGG
Statistics
Matches: 32, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
27 4 0.12
28 28 0.88
ACGTcount: A:0.37, C:0.12, G:0.17, T:0.35
Consensus pattern (28 bp):
CTAATGACTAATTTATACGATAATGGGT
Found at i:8754315 original size:23 final size:23
Alignment explanation
Indices: 8754286--8754367 Score: 103
Period size: 23 Copynumber: 3.6 Consensus size: 23
8754276 CTTTGTGGAG
*
8754286 TATTTTGTTTGCCTTGTGAGGCA
1 TATTTTGTTTGGCTTGTGAGGCA
* *
8754309 TATTTTGTTTGGCTTGTGTGGCG
1 TATTTTGTTTGGCTTGTGAGGCA
*
8754332 TATTTTGTTTGGCTTGTGTA-GCG
1 TATTTTGTTTGGCTTGTG-AGGCA
*
8754355 TATTCTGTTTGGC
1 TATTTTGTTTGGC
8754368 ATTTGTGACG
Statistics
Matches: 53, Mismatches: 5, Indels: 2
0.88 0.08 0.03
Matches are distributed among these distances:
23 53 1.00
ACGTcount: A:0.09, C:0.11, G:0.29, T:0.51
Consensus pattern (23 bp):
TATTTTGTTTGGCTTGTGAGGCA
Found at i:8754335 original size:46 final size:46
Alignment explanation
Indices: 8754277--8754381 Score: 133
Period size: 46 Copynumber: 2.3 Consensus size: 46
8754267 CAATATTGCC
* *
8754277 TTTGTGGAGTATTTTGTTTGCCTTGTG-AGGCATATTTTGTTTGGC-
1 TTTGTGGCGTATTTTGTTTGCCTTGTGTA-GCATATTCTGTTTGGCA
* *
8754322 TTGTGTGGCGTATTTTGTTTGGCTTGTGTAGCGTATTCTGTTTGGCA
1 TT-TGTGGCGTATTTTGTTTGCCTTGTGTAGCATATTCTGTTTGGCA
*
8754369 TTTGTGACGTATT
1 TTTGTGGCGTATT
8754382 CTATAAATGT
Statistics
Matches: 52, Mismatches: 5, Indels: 5
0.84 0.08 0.08
Matches are distributed among these distances:
45 2 0.04
46 47 0.90
47 3 0.06
ACGTcount: A:0.10, C:0.10, G:0.30, T:0.50
Consensus pattern (46 bp):
TTTGTGGCGTATTTTGTTTGCCTTGTGTAGCATATTCTGTTTGGCA
Found at i:8754379 original size:23 final size:22
Alignment explanation
Indices: 8754309--8754383 Score: 80
Period size: 23 Copynumber: 3.3 Consensus size: 22
8754299 TTGTGAGGCA
* *
8754309 TATTTTGTTTGGCTTGTGTGGCG
1 TATTCTGTTTGGCTT-TGTGACG
*
8754332 TATTTTGTTTGGC-TTGTGTAGCG
1 TATTCTGTTTGGCTTTGTG-A-CG
8754355 TATTCTGTTTGGCATTTGTGACG
1 TATTCTGTTTGGC-TTTGTGACG
8754378 TATTCT
1 TATTCT
8754384 ATAAATGTCT
Statistics
Matches: 46, Mismatches: 2, Indels: 8
0.82 0.04 0.14
Matches are distributed among these distances:
21 4 0.09
22 1 0.02
23 35 0.76
24 1 0.02
25 5 0.11
ACGTcount: A:0.09, C:0.11, G:0.28, T:0.52
Consensus pattern (22 bp):
TATTCTGTTTGGCTTTGTGACG
Found at i:8754431 original size:24 final size:24
Alignment explanation
Indices: 8754375--8754433 Score: 73
Period size: 24 Copynumber: 2.5 Consensus size: 24
8754365 GGCATTTGTG
* **
8754375 ACGTATTCTATAAATGTCTTTATG
1 ACGTATTCTATAAATGCCTTTACA
* *
8754399 ATGTTTTCTATAAATGCCTTTACA
1 ACGTATTCTATAAATGCCTTTACA
8754423 ACGTATTCTAT
1 ACGTATTCTAT
8754434 GTTGCTTTTA
Statistics
Matches: 28, Mismatches: 7, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
24 28 1.00
ACGTcount: A:0.29, C:0.15, G:0.10, T:0.46
Consensus pattern (24 bp):
ACGTATTCTATAAATGCCTTTACA
Found at i:8760399 original size:72 final size:72
Alignment explanation
Indices: 8760303--8760638 Score: 466
Period size: 72 Copynumber: 4.7 Consensus size: 72
8760293 CAATGCTAAA
* * *
8760303 CTAGTTTTATCAATTGTTGATTATGTTTGGTTTTTGGATATTGAATTTATGTTCTACTTATTTAT
1 CTAGTTTTATCAATAGTTGTTTATATTTGGTTTTTGGATATTGAATTTATGTTCTACTTATTTAT
8760368 GTGTAAT
66 GTGTAAT
* * *
8760375 CTAGTTTTATCAATGGTTGTTTATGTTTGGTTCTTGGATATTGAATTTATGTTCTACTTATTTAT
1 CTAGTTTTATCAATAGTTGTTTATATTTGGTTTTTGGATATTGAATTTATGTTCTACTTATTTAT
8760440 GTGTAAT
66 GTGTAAT
* * *
8760447 CTAGTGTTATCAACAGTTGTTTATATTTGGTTTTTGGATATTGAATTTATGGTCTACTTATTTAT
1 CTAGTTTTATCAATAGTTGTTTATATTTGGTTTTTGGATATTGAATTTATGTTCTACTTATTTAT
8760512 GCT-TAAT
66 G-TGTAAT
* *
8760519 CTAGTTTTATCAGTAATTGTTTATATTTGGTTTTTGGATATTGAATTTATGTTCTACTTATTT-T
1 CTAGTTTTATCAATAGTTGTTTATATTTGGTTTTTGGATATTGAATTTATGTTCTACTTATTTAT
*
8760583 -TACTAAAT
66 GT-GT-AAT
* * **
8760591 -TAGCTTTATCAATAGTTGTTTATATTT-GATTTTGGATATAAAATTTAT
1 CTAGTTTTATCAATAGTTGTTTATATTTGGTTTTTGGATATTGAATTTAT
8760639 TCACAGGTGA
Statistics
Matches: 240, Mismatches: 20, Indels: 10
0.89 0.07 0.04
Matches are distributed among these distances:
69 1 0.00
70 18 0.08
71 26 0.11
72 194 0.81
73 1 0.00
ACGTcount: A:0.24, C:0.07, G:0.15, T:0.54
Consensus pattern (72 bp):
CTAGTTTTATCAATAGTTGTTTATATTTGGTTTTTGGATATTGAATTTATGTTCTACTTATTTAT
GTGTAAT
Found at i:8763822 original size:18 final size:18
Alignment explanation
Indices: 8763799--8763856 Score: 52
Period size: 18 Copynumber: 3.4 Consensus size: 18
8763789 AGCAATACTA
8763799 AACACTTAAATTTTAAAC
1 AACACTTAAATTTTAAAC
**
8763817 AACACTT---TTCCACAA-
1 AACACTTAAATTTTA-AAC
*
8763832 AACACTTAAATTTTGAAC
1 AACACTTAAATTTTAAAC
8763850 AACACTT
1 AACACTT
8763857 TTCCACAGTA
Statistics
Matches: 30, Mismatches: 5, Indels: 10
0.67 0.11 0.22
Matches are distributed among these distances:
15 10 0.33
16 2 0.07
17 2 0.07
18 16 0.53
ACGTcount: A:0.45, C:0.22, G:0.02, T:0.31
Consensus pattern (18 bp):
AACACTTAAATTTTAAAC
Found at i:8763874 original size:33 final size:33
Alignment explanation
Indices: 8763798--8763863 Score: 123
Period size: 33 Copynumber: 2.0 Consensus size: 33
8763788 CAGCAATACT
8763798 AAACACTTAAATTTTAAACAACACTTTTCCACA
1 AAACACTTAAATTTTAAACAACACTTTTCCACA
*
8763831 AAACACTTAAATTTTGAACAACACTTTTCCACA
1 AAACACTTAAATTTTAAACAACACTTTTCCACA
8763864 GTAATTTTAA
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
33 32 1.00
ACGTcount: A:0.44, C:0.24, G:0.02, T:0.30
Consensus pattern (33 bp):
AAACACTTAAATTTTAAACAACACTTTTCCACA
Found at i:8765508 original size:14 final size:14
Alignment explanation
Indices: 8765491--8765519 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
8765481 TGTATGTATT
8765491 TCCTCTCGTTGAGC
1 TCCTCTCGTTGAGC
8765505 TCCTCTCGTTGAGC
1 TCCTCTCGTTGAGC
8765519 T
1 T
8765520 TTCTTCTTAC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.07, C:0.34, G:0.21, T:0.38
Consensus pattern (14 bp):
TCCTCTCGTTGAGC
Found at i:8770488 original size:3 final size:3
Alignment explanation
Indices: 8770450--8770504 Score: 53
Period size: 3 Copynumber: 18.7 Consensus size: 3
8770440 TTTAGTCCTG
* *
8770450 TTA TT- TTA TTA GTA TTA TTA -AA TTAA TTA GTT- TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TT-A TTA -TTA TTA TTA TTA TTA
8770494 TTA TTA TTA TT
1 TTA TTA TTA TT
8770505 GCTATGTACA
Statistics
Matches: 43, Mismatches: 4, Indels: 10
0.75 0.07 0.18
Matches are distributed among these distances:
2 5 0.12
3 33 0.77
4 5 0.12
ACGTcount: A:0.33, C:0.00, G:0.04, T:0.64
Consensus pattern (3 bp):
TTA
Found at i:8770545 original size:16 final size:16
Alignment explanation
Indices: 8770524--8770556 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
8770514 ATACATTCGT
8770524 TTGTTACACATACATA
1 TTGTTACACATACATA
8770540 TTGTTACACATACATA
1 TTGTTACACATACATA
8770556 T
1 T
8770557 ATATGTCTAT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.36, C:0.18, G:0.06, T:0.39
Consensus pattern (16 bp):
TTGTTACACATACATA
Found at i:8772752 original size:19 final size:19
Alignment explanation
Indices: 8772728--8772774 Score: 60
Period size: 19 Copynumber: 2.5 Consensus size: 19
8772718 AACGTCTCTT
*
8772728 TTTGCATT-CATTTCATGCA
1 TTTGCATTACATTGCAT-CA
8772747 TTTGCATTACATTGCATCA
1 TTTGCATTACATTGCATCA
*
8772766 TATGCATTA
1 TTTGCATTA
8772775 GATTTTCATA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
19 18 0.72
20 7 0.28
ACGTcount: A:0.26, C:0.19, G:0.11, T:0.45
Consensus pattern (19 bp):
TTTGCATTACATTGCATCA
Found at i:8775435 original size:17 final size:17
Alignment explanation
Indices: 8775415--8775457 Score: 68
Period size: 17 Copynumber: 2.5 Consensus size: 17
8775405 AATCAAAGTC
*
8775415 AAAAATAAGAGAAAAAG
1 AAAAAAAAGAGAAAAAG
8775432 AAAAAAAAGAGAAAAAG
1 AAAAAAAAGAGAAAAAG
8775449 AAAAGAAAA
1 AAAA-AAAA
8775458 AGGAGAAGTC
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
17 20 0.83
18 4 0.17
ACGTcount: A:0.81, C:0.00, G:0.16, T:0.02
Consensus pattern (17 bp):
AAAAAAAAGAGAAAAAG
Found at i:8775459 original size:11 final size:11
Alignment explanation
Indices: 8775427--8775459 Score: 50
Period size: 11 Copynumber: 3.0 Consensus size: 11
8775417 AAATAAGAGA
8775427 AAAAGAAAAA-
1 AAAAGAAAAAG
8775437 AAAGAGAAAAAG
1 AAA-AGAAAAAG
8775449 AAAAGAAAAAG
1 AAAAGAAAAAG
8775460 GAGAAGTCAA
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
10 3 0.14
11 15 0.71
12 3 0.14
ACGTcount: A:0.82, C:0.00, G:0.18, T:0.00
Consensus pattern (11 bp):
AAAAGAAAAAG
Found at i:8777720 original size:87 final size:87
Alignment explanation
Indices: 8777567--8778153 Score: 913
Period size: 87 Copynumber: 6.7 Consensus size: 87
8777557 GTGAAAATCA
* * *
8777567 AAAACAAAGCCTTGCCTCCATCGGTTGTAGTGGAGCTGGTTAAATATAGCAGATCTTGTCTTCCT
1 AAAACAAAGCCTTGCCTCCATCGGTTGCAGTGGAGCTGGTTAAAGATAGCAGATCTTGCCTTCCT
*
8777632 GCGTTAACAGCGAAGCAGATCG
66 GCATTAACAGCGAAGCAGATCG
* * * * * *
8777654 AAAACAAAACCATACCTCCATTGGTTGCAGTGGAGCTGATTAAAGATAGCAGATCTTGCCTCCCT
1 AAAACAAAGCCTTGCCTCCATCGGTTGCAGTGGAGCTGGTTAAAGATAGCAGATCTTGCCTTCCT
* *
8777719 GCATTAATAGCGAAGCAGATCA
66 GCATTAACAGCGAAGCAGATCG
8777741 AAAACAAAGCCTTGCCTCCATCGGTTGCAGTGGAGCTGGTTAAAGATAGCAGATCTTGCCTTCCT
1 AAAACAAAGCCTTGCCTCCATCGGTTGCAGTGGAGCTGGTTAAAGATAGCAGATCTTGCCTTCCT
* *
8777806 GCGTTAACAGTGAAGCAGATCG
66 GCATTAACAGCGAAGCAGATCG
* * * *
8777828 AAAACAAAGCATTGCCTCCATCGGTTGTAGTGGAGATGGTTAAAGATAGCAGATCTTGCCTCCCT
1 AAAACAAAGCCTTGCCTCCATCGGTTGCAGTGGAGCTGGTTAAAGATAGCAGATCTTGCCTTCCT
*
8777893 GCATTAATAGCGAAGCAGATCG
66 GCATTAACAGCGAAGCAGATCG
*
8777915 AAAACAAAGCCTTGCCTCCATCGGTTGCAGTGGAGCTGGTTAAAGATAGCAGATCTTACCTTCCT
1 AAAACAAAGCCTTGCCTCCATCGGTTGCAGTGGAGCTGGTTAAAGATAGCAGATCTTGCCTTCCT
*
8777980 CCATTAACAGCGAAGCAGATCG
66 GCATTAACAGCGAAGCAGATCG
** * * * *
8778002 AAAATTAAGCATTGCCTCCATCGGTTGTAGTGGAGATGGTTAAAGATAGCAGATCTTGCCTTTCT
1 AAAACAAAGCCTTGCCTCCATCGGTTGCAGTGGAGCTGGTTAAAGATAGCAGATCTTGCCTTCCT
**
8778067 GTGTTAACAGCGAAGCAGATCG
66 GCATTAACAGCGAAGCAGATCG
8778089 AAAACAAAGCCTTGCCTCCATCGGTTGCAGTGGAGCTGGTTAAAGATAGCAGATCTTGCCTTCCT
1 AAAACAAAGCCTTGCCTCCATCGGTTGCAGTGGAGCTGGTTAAAGATAGCAGATCTTGCCTTCCT
8778154 AGGCACTAGC
Statistics
Matches: 448, Mismatches: 52, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
87 448 1.00
ACGTcount: A:0.29, C:0.22, G:0.23, T:0.25
Consensus pattern (87 bp):
AAAACAAAGCCTTGCCTCCATCGGTTGCAGTGGAGCTGGTTAAAGATAGCAGATCTTGCCTTCCT
GCATTAACAGCGAAGCAGATCG
Done.